Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01015330.1 Kokia drynarioides strain JFW-HI SEQ_130377, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 537633
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.33
Warning! 459 characters in sequence are not A, C, G, or T
Found at i:975 original size:24 final size:26
Alignment explanation
Indices: 948--995 Score: 66
Period size: 24 Copynumber: 1.9 Consensus size: 26
938 AGAGAAATGT
948 AAATG-TGATATATGA-A-ATTATGAG
1 AAATGATGA-ATATGAGAGATTATGAG
972 AAATGATGAATATGAGAGATTATG
1 AAATGATGAATATGAGAGATTATG
996 CCCATGTAGA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
24 11 0.52
25 4 0.19
26 6 0.29
ACGTcount: A:0.46, C:0.00, G:0.23, T:0.31
Consensus pattern (26 bp):
AAATGATGAATATGAGAGATTATGAG
Found at i:1094 original size:23 final size:22
Alignment explanation
Indices: 1068--1203 Score: 98
Period size: 23 Copynumber: 6.0 Consensus size: 22
1058 TTACTATTCA
1068 GCACTATGTGTGCTTACTGTTT
1 GCACTATGTGTGCTTACTGTTT
*
1090 CGCACT-TCGTATGCTTACTGTTT
1 -GCACTAT-GTGTGCTTACTGTTT
*
1113 -CAC-ACCTCGTGTGCCTACTGATTT
1 GCACTA--T-GTGTGCTTACTG-TTT
* * * *
1137 GCGCTATGTGCGCCTACTGATT
1 GCACTATGTGTGCTTACTGTTT
* * *
1159 GCACTGTGTGTGCCTACTGGATT
1 GCACTATGTGTGCTTACT-GTTT
*
1182 GCACTGTGTGTGCTTACTGTTT
1 GCACTATGTGTGCTTACTGTTT
1204 CCCCAGTACT
Statistics
Matches: 94, Mismatches: 11, Indels: 17
0.77 0.09 0.14
Matches are distributed among these distances:
21 3 0.03
22 21 0.22
23 63 0.67
24 4 0.04
25 2 0.02
26 1 0.01
ACGTcount: A:0.13, C:0.24, G:0.24, T:0.39
Consensus pattern (22 bp):
GCACTATGTGTGCTTACTGTTT
Found at i:1168 original size:22 final size:22
Alignment explanation
Indices: 1121--1200 Score: 106
Period size: 23 Copynumber: 3.5 Consensus size: 22
1111 TTCACACCTC
* *
1121 GTGTGCCTACTGATTTGCGCTAT
1 GTGTGCCTACTGA-TTGCACTGT
*
1144 GTGCGCCTACTGATTGCACTGT
1 GTGTGCCTACTGATTGCACTGT
1166 GTGTGCCTACTGGATTGCACTGT
1 GTGTGCCTACT-GATTGCACTGT
*
1189 GTGTGCTTACTG
1 GTGTGCCTACTG
1201 TTTCCCCAGT
Statistics
Matches: 51, Mismatches: 5, Indels: 3
0.86 0.08 0.05
Matches are distributed among these distances:
22 18 0.35
23 33 0.65
ACGTcount: A:0.12, C:0.23, G:0.29, T:0.36
Consensus pattern (22 bp):
GTGTGCCTACTGATTGCACTGT
Found at i:7481 original size:123 final size:126
Alignment explanation
Indices: 7280--7509 Score: 335
Period size: 123 Copynumber: 1.8 Consensus size: 126
7270 TAAATCCTTA
* * *
7280 TATATATATATGAAAATCTAATCTTGGTCGCATGGTTTACTTTGTTTTCACATATATTAGATAGA
1 TATATATATATGAAAATCTAAGCTTGGTCGCATGATTGACTTTGTTTTCACATATATTAGATAGA
* * *
7345 AGTCCAAAGTTAGAAGCAAGTGAATGTCTTAAATATTTATCTGTATATACAAATAAAACCT
66 AGCCCAAAATTAGAAGCAAGTGAATGTATTAAATATTTATCTGTATATACAAATAAAACCT
*
7406 TATATATATATGAAAATCTAAGCTTTGGTTGC-T-ATTGACTTTGTTTTCAC-T-TATTA-AGTA
1 TATATATATATGAAAATCTAAGC-TTGGTCGCATGATTGACTTTGTTTTCACATATATTAGA-TA
*
7466 GAAGCCCAAAATTAGAAGCAGGTGAATGTATTAAATATTTATCT
64 GAAGCCCAAAATTAGAAGCAAGTGAATGTATTAAATATTTATCT
7510 ATAATATTTT
Statistics
Matches: 94, Mismatches: 8, Indels: 7
0.86 0.07 0.06
Matches are distributed among these distances:
122 1 0.01
123 47 0.50
124 1 0.01
125 15 0.16
126 23 0.24
127 7 0.07
ACGTcount: A:0.36, C:0.11, G:0.14, T:0.38
Consensus pattern (126 bp):
TATATATATATGAAAATCTAAGCTTGGTCGCATGATTGACTTTGTTTTCACATATATTAGATAGA
AGCCCAAAATTAGAAGCAAGTGAATGTATTAAATATTTATCTGTATATACAAATAAAACCT
Found at i:7731 original size:14 final size:14
Alignment explanation
Indices: 7714--7746 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
7704 TTTTGAATAT
7714 CTAAAAATATTTTA
1 CTAAAAATATTTTA
*
7728 CTAAATATATTTTA
1 CTAAAAATATTTTA
7742 C-AAAA
1 CTAAAA
7747 TGAGTAACAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
13 3 0.18
14 14 0.82
ACGTcount: A:0.52, C:0.09, G:0.00, T:0.39
Consensus pattern (14 bp):
CTAAAAATATTTTA
Found at i:14393 original size:21 final size:21
Alignment explanation
Indices: 14369--14420 Score: 95
Period size: 21 Copynumber: 2.5 Consensus size: 21
14359 AAAAATTATA
14369 AGGTAGGGGCAAATCCAAGGG
1 AGGTAGGGGCAAATCCAAGGG
14390 AGGTAGGGGCAAATCCAAGGG
1 AGGTAGGGGCAAATCCAAGGG
*
14411 TGGTAGGGGC
1 AGGTAGGGGC
14421 CTTGGCCCCG
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.29, C:0.13, G:0.46, T:0.12
Consensus pattern (21 bp):
AGGTAGGGGCAAATCCAAGGG
Found at i:19435 original size:4 final size:4
Alignment explanation
Indices: 19428--19539 Score: 102
Period size: 4 Copynumber: 28.0 Consensus size: 4
19418 AGGTTAATAA
* * * *
19428 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ACAC ACAC ACAC ACCCAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC A--TAC
* * * * * *
19478 ACAC ATAC ATAC ATAC ATAC ATTC A-A- ACAC ACAC ACAC ACAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
19524 ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC
19540 GTCCCCATTG
Statistics
Matches: 99, Mismatches: 5, Indels: 8
0.88 0.04 0.07
Matches are distributed among these distances:
2 1 0.01
3 1 0.01
4 93 0.94
6 4 0.04
ACGTcount: A:0.49, C:0.34, G:0.00, T:0.17
Consensus pattern (4 bp):
ATAC
Found at i:19537 original size:38 final size:38
Alignment explanation
Indices: 19442--19539 Score: 160
Period size: 38 Copynumber: 2.6 Consensus size: 38
19432 ATACATACAT
* * *
19442 ACATACATACATACATACACACACACACACACCCACAC
1 ACATACATACATACATACATACAAACACACACACACAC
*
19480 ACATACATACATACATACATTCAAACACACACACACAC
1 ACATACATACATACATACATACAAACACACACACACAC
19518 ACATACATACATACATACATAC
1 ACATACATACATACATACATAC
19540 GTCCCCATTG
Statistics
Matches: 55, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
38 55 1.00
ACGTcount: A:0.49, C:0.36, G:0.00, T:0.15
Consensus pattern (38 bp):
ACATACATACATACATACATACAAACACACACACACAC
Found at i:20977 original size:15 final size:17
Alignment explanation
Indices: 20956--20997 Score: 63
Period size: 15 Copynumber: 2.6 Consensus size: 17
20946 AAAAATTGTA
20956 CTTTAATTTTAT-TATT
1 CTTTAATTTTATATATT
20972 -TTTAATTTT-TATATT
1 CTTTAATTTTATATATT
20987 CTTTAATTTTA
1 CTTTAATTTTA
20998 AAATTCTAGT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
14 1 0.04
15 13 0.57
16 9 0.39
ACGTcount: A:0.26, C:0.05, G:0.00, T:0.69
Consensus pattern (17 bp):
CTTTAATTTTATATATT
Found at i:21003 original size:16 final size:16
Alignment explanation
Indices: 20956--21004 Score: 64
Period size: 16 Copynumber: 3.1 Consensus size: 16
20946 AAAAATTGTA
*
20956 CTTTAATTTTATTATT
1 CTTTAATTTTAATATT
*
20972 -TTTAATTTTTATATT
1 CTTTAATTTTAATATT
*
20987 CTTTAATTTTAAAATT
1 CTTTAATTTTAATATT
21003 CT
1 CT
21005 AGTATTCACC
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
15 13 0.46
16 15 0.54
ACGTcount: A:0.29, C:0.06, G:0.00, T:0.65
Consensus pattern (16 bp):
CTTTAATTTTAATATT
Found at i:24810 original size:18 final size:18
Alignment explanation
Indices: 24753--24811 Score: 66
Period size: 18 Copynumber: 3.3 Consensus size: 18
24743 TTTAAATATC
* *
24753 AAATTGAATATTGAAATC
1 AAATTAAATATTGAAATT
*
24771 AAACTTAAATA-TCAAATT
1 AAA-TTAAATATTGAAATT
*
24789 AAATTAAATATTGAAGTT
1 AAATTAAATATTGAAATT
24807 AAATT
1 AAATT
24812 TGAGTACCAA
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
17 7 0.21
18 21 0.62
19 6 0.18
ACGTcount: A:0.53, C:0.05, G:0.07, T:0.36
Consensus pattern (18 bp):
AAATTAAATATTGAAATT
Found at i:31320 original size:3 final size:3
Alignment explanation
Indices: 31312--31338 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
31302 CCAGCACAAG
31312 CTC CTC CTC CTC CTC CTC CTC CTC CTC
1 CTC CTC CTC CTC CTC CTC CTC CTC CTC
31339 AGGTCCTTGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.00, C:0.67, G:0.00, T:0.33
Consensus pattern (3 bp):
CTC
Found at i:31597 original size:2 final size:2
Alignment explanation
Indices: 31590--31622 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
31580 ATCCATGAAT
*
31590 TA TA TA TA TA TA TA TA CA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
31623 GATGTAACAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:45513 original size:60 final size:60
Alignment explanation
Indices: 45449--45672 Score: 234
Period size: 61 Copynumber: 3.7 Consensus size: 60
45439 ATTACATGAT
* * **
45449 CGACATCACCTTTCTATCTGATAAAAAATAAAAAAATTTTGGTATTGGTCATGCATTGGC
1 CGACACCACCTTTTTATCTGATAAAAAATAAAAATTTTTTGGTATTGGTCATGCATTGGC
* * * * **
45509 CGACACCACTTTTTTATCTGACAAAAAATTCAAATTTTTTTGGTATTGGTCATGCATTGAT
1 CGACACCACCTTTTTATCTGATAAAAAA-TAAAAATTTTTTGGTATTGGTCATGCATTGGC
* * ** * *
45570 CGACATCACCTTTTTAT-TAGAAAAAAAAATTTAAATTTTTTGGTGTTGGTCATGTATTGGC
1 CGACACCACCTTTTTATCT-G-ATAAAAAATAAAAATTTTTTGGTATTGGTCATGCATTGGC
* * *
45631 CGACACCCCCTTTTTATATGATAAAAAAATCAAAATTTTTTG
1 CGACACCACCTTTTTATCTGAT-AAAAAATAAAAATTTTTTG
45673 TGTTAACAAT
Statistics
Matches: 134, Mismatches: 25, Indels: 9
0.80 0.15 0.05
Matches are distributed among these distances:
60 26 0.19
61 100 0.75
62 8 0.06
ACGTcount: A:0.33, C:0.16, G:0.13, T:0.38
Consensus pattern (60 bp):
CGACACCACCTTTTTATCTGATAAAAAATAAAAATTTTTTGGTATTGGTCATGCATTGGC
Found at i:45629 original size:122 final size:121
Alignment explanation
Indices: 45445--45672 Score: 305
Period size: 122 Copynumber: 1.9 Consensus size: 121
45435 GGCCATTACA
*
45445 TGATCGACATCACCTTTCTATCTGATAAAAAATAAAAAAATTTTGGTATTGGTCATGCATTGGCC
1 TGATCGACATCACCTTTCTATCTGAAAAAAAATAAAAAAATTTTGGTATTGGTCATGCATTGGCC
* * * *
45510 GACACCACTTTTTTATCTGACAAAAAATTCAAATTTTTTTGGTATTGGTCATGCAT
66 GACACCACCTTTTTATATGACAAAAAAATCAAAATTTTTTGGTATTGGTCATGCAT
* ** ** * *
45566 TGATCGACATCACCTTTTTAT-TAGAAAAAAAAATTTAAATTTTTTGGTGTTGGTCATGTATTGG
1 TGATCGACATCACCTTTCTATCT-G-AAAAAAAATAAAAAAATTTTGGTATTGGTCATGCATTGG
* *
45630 CCGACACCCCCTTTTTATATGATAAAAAAATCAAAATTTTTTG
64 CCGACACCACCTTTTTATATGACAAAAAAATCAAAATTTTTTG
45673 TGTTAACAAT
Statistics
Matches: 91, Mismatches: 14, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
120 1 0.01
121 21 0.23
122 69 0.76
ACGTcount: A:0.33, C:0.15, G:0.14, T:0.38
Consensus pattern (121 bp):
TGATCGACATCACCTTTCTATCTGAAAAAAAATAAAAAAATTTTGGTATTGGTCATGCATTGGCC
GACACCACCTTTTTATATGACAAAAAAATCAAAATTTTTTGGTATTGGTCATGCAT
Found at i:45716 original size:122 final size:122
Alignment explanation
Indices: 45485--45730 Score: 284
Period size: 122 Copynumber: 2.0 Consensus size: 122
45475 AATAAAAAAA
* * * *
45485 TTTTGGTATTGGTCATGCATTGGCCGACACCACTTTTTTATCTGACAAAAAATTCAAATTTTTTT
1 TTTTGGTATTGGTCATGCATTGGCCGACACCACCTTTTTATATGACAAAAAAATCAAAATTTTTT
** *
45550 GGTATTGGTCATGCATTGATCGACATCACCTTTTTATTAGAAAAAAAAATTTAAATT
66 GGTATTGAACATGCATTGACCGACATCACCTTTTTATTAGAAAAAAAAATTTAAATT
* * * *
45607 TTTTGGTGTTGGTCATGTATTGGCCGACACCCCCTTTTTATATGATAAAAAAATCAAAATTTTTT
1 TTTTGGTATTGGTCATGCATTGGCCGACACCACCTTTTTATATGACAAAAAAATCAAAATTTTTT
* * * * * **
45672 -GTGTT-AACAATTTCA-TGGCCGACATC-CCTTTTTATTTGATAAAAAAATTTTGATT
66 GGTATTGAAC-A-TGCATTGACCGACATCACCTTTTTATTAGAAAAAAAAATTTAAATT
45727 TTTT
1 TTTT
45731 ATCTATAGAA
Statistics
Matches: 104, Mismatches: 18, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
120 30 0.29
121 14 0.13
122 60 0.58
ACGTcount: A:0.30, C:0.15, G:0.14, T:0.42
Consensus pattern (122 bp):
TTTTGGTATTGGTCATGCATTGGCCGACACCACCTTTTTATATGACAAAAAAATCAAAATTTTTT
GGTATTGAACATGCATTGACCGACATCACCTTTTTATTAGAAAAAAAAATTTAAATT
Found at i:45730 original size:60 final size:60
Alignment explanation
Indices: 45449--45730 Score: 180
Period size: 61 Copynumber: 4.7 Consensus size: 60
45439 ATTACATGAT
* * ** ** * ** *
45449 CGACATCACCTTTCTATCTGAT-AAAAAATAAAAAAATTTTGGTATTGGTCATGCATTGGC
1 CGACATC-CCTTTTTATTTGATAAAAAAATTTAAATTTTTTGGTGTTGAACATGTATTGGC
* * * * ** * **
45509 CGACA-CCACTTTTTTATCTGA-CAAAAAATTCAAATTTTTTTGGTATTGGTCATGCATTGAT
1 CGACATCC-C-TTTTTATTTGATAAAAAAATTTAAA-TTTTTTGGTGTTGAACATGTATTGGC
* * **
45570 CGACATCACCTTTTTATTAGAAAAAAAAATTTAAATTTTTTGGTGTTGGTCATGTATTGGC
1 CGACATC-CCTTTTTATTTGATAAAAAAATTTAAATTTTTTGGTGTTGAACATGTATTGGC
* * ** *
45631 CGACACCCCCTTTTTATATGATAAAAAAATCAAAATTTTTT-GTGTT-AACAATTTCA-TGGC
1 CGACA-TCCCTTTTTATTTGATAAAAAAATTTAAATTTTTTGGTGTTGAAC-ATGT-ATTGGC
**
45691 CGACATCCCTTTTTATTTGATAAAAAAATTTTGATTTTTT
1 CGACATCCCTTTTTATTTGATAAAAAAATTTAAATTTTTT
45731 ATCTATAGAA
Statistics
Matches: 182, Mismatches: 30, Indels: 21
0.78 0.13 0.09
Matches are distributed among these distances:
58 1 0.01
59 32 0.18
60 42 0.23
61 92 0.51
62 14 0.08
63 1 0.01
ACGTcount: A:0.32, C:0.15, G:0.13, T:0.40
Consensus pattern (60 bp):
CGACATCCCTTTTTATTTGATAAAAAAATTTAAATTTTTTGGTGTTGAACATGTATTGGC
Found at i:48331 original size:17 final size:17
Alignment explanation
Indices: 48309--48347 Score: 62
Period size: 17 Copynumber: 2.3 Consensus size: 17
48299 ATAATATATT
48309 ATTAA-TAATTTCGATTA
1 ATTAATTAATTT-GATTA
48326 ATTAATTAATTTGATTA
1 ATTAATTAATTTGATTA
48343 ATTAA
1 ATTAA
48348 AAAAAAAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 15 0.71
18 6 0.29
ACGTcount: A:0.44, C:0.03, G:0.05, T:0.49
Consensus pattern (17 bp):
ATTAATTAATTTGATTA
Found at i:79891 original size:42 final size:42
Alignment explanation
Indices: 79813--79893 Score: 103
Period size: 42 Copynumber: 1.9 Consensus size: 42
79803 CAGAATTAGA
* * *
79813 TATTCTACAGTATTTAGTAGTCATAAACTCGAAATGATATAC
1 TATTCTACAATATTTAGAAGTCATAAACACGAAATGATATAC
79855 TATTCTACAATATTTTA-AAGTCATAAACAC-ATAATGATA
1 TATTCTACAATA-TTTAGAAGTCATAAACACGA-AATGATA
79894 AAAGTCTTTC
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
41 1 0.03
42 29 0.85
43 4 0.12
ACGTcount: A:0.42, C:0.14, G:0.09, T:0.36
Consensus pattern (42 bp):
TATTCTACAATATTTAGAAGTCATAAACACGAAATGATATAC
Found at i:85213 original size:156 final size:158
Alignment explanation
Indices: 84929--85243 Score: 508
Period size: 156 Copynumber: 2.0 Consensus size: 158
84919 CAAAAAATAA
* *
84929 AAGAAATTCATGCATATTAGTCTAAGACACCCTCTATACTTAATGGTCAATTAAAACCAATACAA
1 AAGAAATTAATGCATACTAGTCTAAGACACCCTCTATACTTAATGGTCAATTAAAACCAATACAA
* * *
84994 TATCATTAAATTTTGACTAACACTTCCATCCACATTCAAAAATTAAGCAAGTAACACTATACCAA
66 TATCATTAAAATTTAACCAACACTTCCATCCACATTCAAAAATTAAGCAAGTAACACTATACCAA
*
85059 TC-AAAA-AAATTACATTTGATTCAAAC
131 TCAAAAAGAAATTACATTTAATTCAAAC
* * *
85085 AAGAAATTAATGCATACTAGTCTAAGACACCTTCTATACTTAATGGTCACTTAAAACCAATACTA
1 AAGAAATTAATGCATACTAGTCTAAGACACCCTCTATACTTAATGGTCAATTAAAACCAATACAA
* *
85150 TATGATTAAAATTTAACCAACACTTCCATCCAGATTCAAAAATTAAGCAAGTAACACTATACCAA
66 TATCATTAAAATTTAACCAACACTTCCATCCACATTCAAAAATTAAGCAAGTAACACTATACCAA
85215 TCAAAAAAGAAATTACATTTAATTCAAAC
131 TC-AAAAAGAAATTACATTTAATTCAAAC
85244 CAAACTAACA
Statistics
Matches: 145, Mismatches: 11, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
156 122 0.84
158 4 0.03
159 19 0.13
ACGTcount: A:0.45, C:0.20, G:0.07, T:0.28
Consensus pattern (158 bp):
AAGAAATTAATGCATACTAGTCTAAGACACCCTCTATACTTAATGGTCAATTAAAACCAATACAA
TATCATTAAAATTTAACCAACACTTCCATCCACATTCAAAAATTAAGCAAGTAACACTATACCAA
TCAAAAAGAAATTACATTTAATTCAAAC
Found at i:86233 original size:20 final size:22
Alignment explanation
Indices: 86195--86234 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
86185 AATTTTTAAA
*
86195 AATATAAATGAATTAATTTTTT
1 AATAAAAATGAATTAATTTTTT
86217 AATAAAAAT-AATT-ATTTT
1 AATAAAAATGAATTAATTTT
86235 ACTCTTTGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 5 0.29
21 4 0.24
22 8 0.47
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (22 bp):
AATAAAAATGAATTAATTTTTT
Found at i:93228 original size:15 final size:15
Alignment explanation
Indices: 93193--93245 Score: 54
Period size: 16 Copynumber: 3.5 Consensus size: 15
93183 CTCGGTCAAG
*
93193 ATTAAAAATTCAAAAT
1 ATTAAAAATT-AAAAA
*
93209 TTTAAAAATTAAAAA
1 ATTAAAAATTAAAAA
*
93224 ATT-AAAATTAACCAA
1 ATTAAAAATTAA-AAA
93239 ATTAAAA
1 ATTAAAA
93246 TATAAATACT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
14 8 0.26
15 11 0.35
16 12 0.39
ACGTcount: A:0.64, C:0.06, G:0.00, T:0.30
Consensus pattern (15 bp):
ATTAAAAATTAAAAA
Found at i:93246 original size:15 final size:14
Alignment explanation
Indices: 93213--93251 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 14
93203 CAAAATTTTA
93213 AAAATTAAAAAATT
1 AAAATTAAAAAATT
*
93227 AAAATTAACCAAATT
1 AAAATTAA-AAAATT
93242 AAAATATAAA
1 AAAAT-TAAA
93252 TACTAGATCC
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
14 8 0.38
15 10 0.48
16 3 0.14
ACGTcount: A:0.69, C:0.05, G:0.00, T:0.26
Consensus pattern (14 bp):
AAAATTAAAAAATT
Found at i:96693 original size:26 final size:24
Alignment explanation
Indices: 96647--96694 Score: 69
Period size: 26 Copynumber: 1.9 Consensus size: 24
96637 ATTATTTTAT
*
96647 TATATAAATAATTTTAAAATATGA
1 TATATAAATAATTTAAAAATATGA
96671 TATATCAAATACATTTAAAAATAT
1 TATAT-AAATA-ATTTAAAAATAT
96695 TAAAACAACA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 5 0.24
25 5 0.24
26 11 0.52
ACGTcount: A:0.54, C:0.04, G:0.02, T:0.40
Consensus pattern (24 bp):
TATATAAATAATTTAAAAATATGA
Found at i:97221 original size:30 final size:31
Alignment explanation
Indices: 97185--97243 Score: 77
Period size: 31 Copynumber: 1.9 Consensus size: 31
97175 ATTTTAAAAA
*
97185 TAAACTT-CGTTTTT-TTCTAAACCCATTTTT
1 TAAACTTACATTTTTATTC-AAACCCATTTTT
*
97215 TAAACTTACATTTTTATTCAAACCTATTT
1 TAAACTTACATTTTTATTCAAACCCATTT
97244 ATTTTTCGAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
30 7 0.28
31 15 0.60
32 3 0.12
ACGTcount: A:0.29, C:0.19, G:0.02, T:0.51
Consensus pattern (31 bp):
TAAACTTACATTTTTATTCAAACCCATTTTT
Found at i:112866 original size:12 final size:12
Alignment explanation
Indices: 112846--112881 Score: 63
Period size: 12 Copynumber: 3.0 Consensus size: 12
112836 GAATGAATTC
*
112846 ATCGGCGCCGTT
1 ATCGCCGCCGTT
112858 ATCGCCGCCGTT
1 ATCGCCGCCGTT
112870 ATCGCCGCCGTT
1 ATCGCCGCCGTT
112882 CCTGTAACTA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.08, C:0.39, G:0.28, T:0.25
Consensus pattern (12 bp):
ATCGCCGCCGTT
Found at i:124549 original size:19 final size:18
Alignment explanation
Indices: 124522--124568 Score: 58
Period size: 19 Copynumber: 2.6 Consensus size: 18
124512 GATAACTTTT
124522 AAAAAATAATAAAAAATA
1 AAAAAATAATAAAAAATA
* *
124540 AAAAACATAATTAAAACTA
1 AAAAA-ATAATAAAAAATA
*
124559 AAAGAATAAT
1 AAAAAATAAT
124569 TTGGGACAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
18 10 0.40
19 15 0.60
ACGTcount: A:0.74, C:0.04, G:0.02, T:0.19
Consensus pattern (18 bp):
AAAAAATAATAAAAAATA
Found at i:124567 original size:18 final size:17
Alignment explanation
Indices: 124521--124569 Score: 53
Period size: 18 Copynumber: 2.7 Consensus size: 17
124511 TGATAACTTT
*
124521 TAAAAAATAATAAAAAA
1 TAAAAAATAATTAAAAA
*
124538 TAAAAAACATAATTAAAAC
1 T-AAAAA-ATAATTAAAAA
124557 TAAAAGAATAATT
1 TAAAA-AATAATT
124570 TGGGACAAAG
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
17 1 0.04
18 15 0.56
19 11 0.41
ACGTcount: A:0.71, C:0.04, G:0.02, T:0.22
Consensus pattern (17 bp):
TAAAAAATAATTAAAAA
Found at i:126414 original size:30 final size:29
Alignment explanation
Indices: 126380--126438 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 29
126370 AACACATGAC
*
126380 AAAA-TTACATTTTGATCTCTCAAAAATTTT
1 AAAATTTA-ATTTTAATCTCT-AAAAATTTT
126410 AAAATTTAATTTTAATCTCTAAAAATTTT
1 AAAATTTAATTTTAATCTCTAAAAATTTT
126439 CTAACTTCGC
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
29 9 0.33
30 15 0.56
31 3 0.11
ACGTcount: A:0.42, C:0.10, G:0.02, T:0.46
Consensus pattern (29 bp):
AAAATTTAATTTTAATCTCTAAAAATTTT
Found at i:126982 original size:2 final size:2
Alignment explanation
Indices: 126975--127023 Score: 98
Period size: 2 Copynumber: 24.5 Consensus size: 2
126965 TACATAGACC
126975 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
127017 TA TA TA T
1 TA TA TA T
127024 TAGCTAATTA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:127768 original size:19 final size:19
Alignment explanation
Indices: 127744--127781 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
127734 TTTTGGTTTT
127744 GGAGTGGCATATTTCGATA
1 GGAGTGGCATATTTCGATA
127763 GGAGTGGCATATTTCGATA
1 GGAGTGGCATATTTCGATA
127782 AATGGACGGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.26, C:0.11, G:0.32, T:0.32
Consensus pattern (19 bp):
GGAGTGGCATATTTCGATA
Found at i:145036 original size:28 final size:28
Alignment explanation
Indices: 144983--145052 Score: 74
Period size: 28 Copynumber: 2.5 Consensus size: 28
144973 AGAAATTTAA
144983 TATAA-ATATATAATTATTAATTTATTAT
1 TATAACATATATAATTATTAA-TTATTAT
*
145011 T-TAACATATATAATTAATATAA-TATTTT
1 TATAACATATATAATT-AT-TAATTATTAT
145039 TATAACATAATATA
1 TATAACAT-ATATA
145053 TTTGGGCTAT
Statistics
Matches: 36, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
27 3 0.08
28 17 0.47
29 8 0.22
30 8 0.22
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (28 bp):
TATAACATATATAATTATTAATTATTAT
Found at i:153625 original size:20 final size:22
Alignment explanation
Indices: 153600--153648 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 22
153590 TGCACCTCGA
153600 TTTATTTACAATTT-A-ATAAT
1 TTTATTTACAATTTGATATAAT
*
153620 TTTATTT-TAATTTGATATAAT
1 TTTATTTACAATTTGATATAAT
*
153641 TTAATTTA
1 TTTATTTA
153649 TTTATTTATA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
19 5 0.21
20 8 0.33
21 11 0.46
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.59
Consensus pattern (22 bp):
TTTATTTACAATTTGATATAAT
Found at i:180112 original size:96 final size:97
Alignment explanation
Indices: 179994--180180 Score: 243
Period size: 96 Copynumber: 1.9 Consensus size: 97
179984 AACCTGAAGG
* * * * *
179994 AAAAATAACTTAAACCCAAAATGATTAGATAAGTAATTTG-AAATGATTTGAATTTGAGGGTCAA
1 AAAAATAACCTAAACCCAAAATGATTAAATAAGTAA-TCGAAAATGATTTGAAATCGAGGGTCAA
*
180058 ACACAAATGACCCAAACTTAAAATGACCTAAAT
65 ACACAAACGACCCAAACTTAAAATGACCTAAAT
* *
180091 AAAAA-AACCTAAACCCAAAATGATTAAATAAGTAATCGAAAATTATTTGAAATCGAGTGTCAAA
1 AAAAATAACCTAAACCCAAAATGATTAAATAAGTAATCGAAAATGATTTGAAATCGAGGGTCAAA
* * * *
180155 TACAAGCGATCTAAACTTAAAATGAC
66 CACAAACGACCCAAACTTAAAATGAC
180181 TCAACTTGAA
Statistics
Matches: 77, Mismatches: 12, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
95 2 0.03
96 70 0.91
97 5 0.06
ACGTcount: A:0.50, C:0.14, G:0.12, T:0.25
Consensus pattern (97 bp):
AAAAATAACCTAAACCCAAAATGATTAAATAAGTAATCGAAAATGATTTGAAATCGAGGGTCAAA
CACAAACGACCCAAACTTAAAATGACCTAAAT
Found at i:180206 original size:96 final size:96
Alignment explanation
Indices: 180005--180209 Score: 234
Period size: 96 Copynumber: 2.1 Consensus size: 96
179995 AAAATAACTT
* * * * *
180005 AAACCCAAAATGATTAGATAAGTAATTTGAAATGATTTGAATTTGAGGGTCAAACACAAATGACC
1 AAACCCAAAATGATTAAATAAGTAATTCGAAATGATTTGAAATCGAGGGTCAAACACAAACGACC
*
180070 CAAACTTAAAATGACCTAAATAAAAAAACCT
66 CAAACTTAAAATGACCTAAATAAAAAAACCC
* * * * *
180101 AAACCCAAAATGATTAAATAAGTAA-TCGAAAATTATTTGAAATCGAGTGTCAAATACAAGCGAT
1 AAACCCAAAATGATTAAATAAGTAATTCG-AAATGATTTGAAATCGAGGGTCAAACACAAACGAC
* * **
180165 CTAAACTTAAAATGA-CTCAACTTGAAAAACCC
65 CCAAACTTAAAATGACCT-AAATAAAAAAACCC
*
180197 AAACTCAAAATGA
1 AAACCCAAAATGA
180210 AAATGACTCG
Statistics
Matches: 91, Mismatches: 16, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
95 4 0.04
96 87 0.96
ACGTcount: A:0.49, C:0.16, G:0.12, T:0.23
Consensus pattern (96 bp):
AAACCCAAAATGATTAAATAAGTAATTCGAAATGATTTGAAATCGAGGGTCAAACACAAACGACC
CAAACTTAAAATGACCTAAATAAAAAAACCC
Found at i:183372 original size:38 final size:38
Alignment explanation
Indices: 183317--183390 Score: 132
Period size: 38 Copynumber: 1.9 Consensus size: 38
183307 TGTTAAATCA
183317 AAAAGAAAACTGATCATTCTGTTAAAATTACATCCACT
1 AAAAGAAAACTGATCATTCTGTTAAAATTACATCCACT
183355 AAAAGAAAACT-AGTCATTCTGTTAAAATTACATCCA
1 AAAAGAAAACTGA-TCATTCTGTTAAAATTACATCCA
183391 TTTTTATGGT
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
37 1 0.03
38 34 0.97
ACGTcount: A:0.46, C:0.18, G:0.08, T:0.28
Consensus pattern (38 bp):
AAAAGAAAACTGATCATTCTGTTAAAATTACATCCACT
Found at i:191448 original size:16 final size:16
Alignment explanation
Indices: 191420--191457 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
191410 TAAATTTGGA
191420 TATTTTAAGTTTAAAT
1 TATTTTAAGTTTAAAT
191436 TATTTATAA-TTTAAAT
1 TATTT-TAAGTTTAAAT
191452 TATTTT
1 TATTTT
191458 TGGATCAATC
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 1 0.05
16 17 0.81
17 3 0.14
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.61
Consensus pattern (16 bp):
TATTTTAAGTTTAAAT
Found at i:192690 original size:20 final size:19
Alignment explanation
Indices: 192665--192704 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
192655 TGAATTGTCC
192665 TTAATCCATTGTTTCTTTAT
1 TTAATCCATTGTTT-TTTAT
**
192685 TTAATCTTTTGTTTTTTAT
1 TTAATCCATTGTTTTTTAT
192704 T
1 T
192705 CGCTCGTTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 6 0.33
20 12 0.67
ACGTcount: A:0.17, C:0.10, G:0.05, T:0.68
Consensus pattern (19 bp):
TTAATCCATTGTTTTTTAT
Found at i:207016 original size:12 final size:12
Alignment explanation
Indices: 206999--207024 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
206989 TTTCTAAAAG
206999 AGTTCTAATTAA
1 AGTTCTAATTAA
207011 AGTTCTAATTAA
1 AGTTCTAATTAA
207023 AG
1 AG
207025 ATTTGATGTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.42, C:0.08, G:0.12, T:0.38
Consensus pattern (12 bp):
AGTTCTAATTAA
Found at i:218464 original size:3 final size:3
Alignment explanation
Indices: 218456--218491 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
218446 TCTCTCTCTC
218456 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
218492 GAGTGATGTG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:223064 original size:34 final size:34
Alignment explanation
Indices: 223026--223091 Score: 114
Period size: 34 Copynumber: 1.9 Consensus size: 34
223016 TATAATTTAT
*
223026 TTTGTAAATAAAAATTTATTTTAATAATTTCTAC
1 TTTGTAAATAAAAATATATTTTAATAATTTCTAC
*
223060 TTTGTAAATAAAAGTATATTTTAATAATTTCT
1 TTTGTAAATAAAAATATATTTTAATAATTTCT
223092 CAATTGAATT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 30 1.00
ACGTcount: A:0.41, C:0.05, G:0.05, T:0.50
Consensus pattern (34 bp):
TTTGTAAATAAAAATATATTTTAATAATTTCTAC
Found at i:234044 original size:96 final size:96
Alignment explanation
Indices: 233870--234057 Score: 229
Period size: 96 Copynumber: 2.0 Consensus size: 96
233860 AATTTGCATA
** * *
233870 AAGGATATTCGATTATCTCGATTTAAAGAAAGGTTGCACCTAGTAAGTTAAGGCGCAATTTTTCA
1 AAGGATATTCGATTATCTCGATTTAAAGAAAAATTGCACCTAGTAAGTTAAGGCACAAATTTTCA
233935 GAATCAAAGAT-AAAGAAACATTGCCTCGATT
66 GAATCAAAGATAAAAG-AACATTGCCTCGATT
* * * * *
233966 AAGGGTATTCGATTATTTCGATTTGAAGAAAAATTGCGCCTAGTGAGTTAAGGCACAAATTTTC-
1 AAGGATATTCGATTATCTCGATTTAAAGAAAAATTGCACCTAGTAAGTTAAGGCACAAATTTTCA
* *
234030 GAAACTCGAA-ATAAAAGAATATTGCCTC
66 G-AA-TCAAAGATAAAAGAACATTGCCTC
234058 CATTTTTTTT
Statistics
Matches: 78, Mismatches: 11, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
95 1 0.01
96 69 0.88
97 8 0.10
ACGTcount: A:0.37, C:0.14, G:0.19, T:0.29
Consensus pattern (96 bp):
AAGGATATTCGATTATCTCGATTTAAAGAAAAATTGCACCTAGTAAGTTAAGGCACAAATTTTCA
GAATCAAAGATAAAAGAACATTGCCTCGATT
Found at i:234489 original size:29 final size:30
Alignment explanation
Indices: 234418--234674 Score: 243
Period size: 29 Copynumber: 8.8 Consensus size: 30
234408 TCCGAAATTA
*
234418 AAAATGGTAATTTTTGGAAGTTTC-AAGGT
1 AAAATGGTAATTTTTGGAAGTTTCGAGGGT
* *
234447 CAAAAATGG-GATTTTTGAAAG-TTCGAGGGT
1 --AAAATGGTAATTTTTGGAAGTTTCGAGGGT
234477 AAAATGGTAATTTTTGGAAGTTTCGA-GGT
1 AAAATGGTAATTTTTGGAAGTTTCGAGGGT
* *
234506 CAAAAATGG-GATTTTTGGAAGTTT-GGGGGT
1 --AAAATGGTAATTTTTGGAAGTTTCGAGGGT
*
234536 AAAATGGTAATTTTTGGAAGTTTCGAGGTT
1 AAAATGGTAATTTTTGGAAGTTTCGAGGGT
* *
234566 AAAATGG-GATTTTTGGAAGTTTAG-GGGT
1 AAAATGGTAATTTTTGGAAGTTTCGAGGGT
*
234594 AAAATTGTAATTTTTGGAAGCTTT-G-GGGT
1 AAAATGGTAATTTTTGGAAG-TTTCGAGGGT
* ** *
234623 CAAAATGGGAA-TTTTAAAAG-TTCAGGGGGT
1 -AAAATGGTAATTTTTGGAAGTTTC-GAGGGT
234653 AAAATGGTAA-TTTTGGAAGTTT
1 AAAATGGTAATTTTTGGAAGTTT
234675 AGGGACCTCC
Statistics
Matches: 189, Mismatches: 22, Indels: 31
0.78 0.09 0.13
Matches are distributed among these distances:
27 2 0.01
28 23 0.12
29 86 0.46
30 64 0.34
31 14 0.07
ACGTcount: A:0.32, C:0.04, G:0.29, T:0.36
Consensus pattern (30 bp):
AAAATGGTAATTTTTGGAAGTTTCGAGGGT
Found at i:234598 original size:58 final size:59
Alignment explanation
Indices: 234418--234674 Score: 353
Period size: 59 Copynumber: 4.4 Consensus size: 59
234408 TCCGAAATTA
* *
234418 AAAATGGTAATTTTTGGAAGTTTCAAGGTCAAAAATGGGATTTTTGAAAG-TTCGAGGGT
1 AAAATGGTAATTTTTGGAAGTTTCGAGGTCAAAAATGGGATTTTTGAAAGTTTAG-GGGT
* *
234477 AAAATGGTAATTTTTGGAAGTTTCGAGGTCAAAAATGGGATTTTTGGAAGTTTGGGGGT
1 AAAATGGTAATTTTTGGAAGTTTCGAGGTCAAAAATGGGATTTTTGAAAGTTTAGGGGT
* *
234536 AAAATGGTAATTTTTGGAAGTTTCGAGGT-TAAAATGGGATTTTTGGAAGTTTAGGGGT
1 AAAATGGTAATTTTTGGAAGTTTCGAGGTCAAAAATGGGATTTTTGAAAGTTTAGGGGT
* * * * *
234594 AAAATTGTAATTTTTGGAAGCTTT-GGGGTC-AAAATGGGAATTTTAAAAGTTCAGGGGGT
1 AAAATGGTAATTTTTGGAAG-TTTCGAGGTCAAAAATGGGATTTTTGAAAGTTTA-GGGGT
234653 AAAATGGTAA-TTTTGGAAGTTT
1 AAAATGGTAATTTTTGGAAGTTT
234675 AGGGACCTCC
Statistics
Matches: 182, Mismatches: 12, Indels: 10
0.89 0.06 0.05
Matches are distributed among these distances:
57 3 0.02
58 78 0.43
59 98 0.54
60 3 0.02
ACGTcount: A:0.32, C:0.04, G:0.29, T:0.36
Consensus pattern (59 bp):
AAAATGGTAATTTTTGGAAGTTTCGAGGTCAAAAATGGGATTTTTGAAAGTTTAGGGGT
Found at i:235785 original size:3 final size:3
Alignment explanation
Indices: 235743--235767 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
235733 TTTTTTACTC
235743 ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT A
235768 AGAAAATATT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:236377 original size:15 final size:15
Alignment explanation
Indices: 236357--236427 Score: 90
Period size: 15 Copynumber: 4.7 Consensus size: 15
236347 GTTTGGAATC
236357 TTGGGCCATTTGTAA
1 TTGGGCCATTTGTAA
*
236372 TTGGGCCATCTGTAA
1 TTGGGCCATTTGTAA
*
236387 TTGGGCCGTTTAG-AA
1 TTGGGCCATTT-GTAA
*
236402 TTAGGCCATTTGTAA
1 TTGGGCCATTTGTAA
*
236417 TTGGGCTATTT
1 TTGGGCCATTT
236428 AGATCTGTAC
Statistics
Matches: 47, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
14 1 0.02
15 45 0.96
16 1 0.02
ACGTcount: A:0.20, C:0.14, G:0.27, T:0.39
Consensus pattern (15 bp):
TTGGGCCATTTGTAA
Found at i:236487 original size:17 final size:17
Alignment explanation
Indices: 236465--236519 Score: 69
Period size: 17 Copynumber: 3.4 Consensus size: 17
236455 TTAGACATTT
*
236465 TAAATTTAAATTTGAAA
1 TAAATTTAAATTTAAAA
236482 TAAATTTAAATTTAAAA
1 TAAATTTAAATTTAAAA
* *
236499 T--ACTTAATTTTAAAA
1 TAAATTTAAATTTAAAA
236514 TAAATT
1 TAAATT
236520 CAATTTCCAA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
15 13 0.41
17 19 0.59
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.44
Consensus pattern (17 bp):
TAAATTTAAATTTAAAA
Found at i:238802 original size:2 final size:2
Alignment explanation
Indices: 238791--238830 Score: 73
Period size: 2 Copynumber: 20.5 Consensus size: 2
238781 TTTAGAGATC
238791 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
238831 CGAAGTGGGC
Statistics
Matches: 37, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 36 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:249205 original size:4 final size:4
Alignment explanation
Indices: 249196--249224 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
249186 GAGTCTTGTT
249196 TCCC TCCC TCCC TCCC TCCC TCCC TCCC T
1 TCCC TCCC TCCC TCCC TCCC TCCC TCCC T
249225 TGTACACAAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.00, C:0.72, G:0.00, T:0.28
Consensus pattern (4 bp):
TCCC
Found at i:263242 original size:20 final size:17
Alignment explanation
Indices: 263218--263253 Score: 54
Period size: 19 Copynumber: 2.0 Consensus size: 17
263208 ATGACTATAA
263218 AAAAAATTTCAATAATTAT
1 AAAAAATTT-AA-AATTAT
263237 AAAAAATTTAAAATTAT
1 AAAAAATTTAAAATTAT
263254 TAAATATTGA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.35
18 2 0.12
19 9 0.53
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.36
Consensus pattern (17 bp):
AAAAAATTTAAAATTAT
Found at i:268617 original size:31 final size:33
Alignment explanation
Indices: 268582--268646 Score: 91
Period size: 32 Copynumber: 2.0 Consensus size: 33
268572 AAATTCTAGT
*
268582 CTCAAACCT-AAATGA-CTCGGACCTAAA-TTAA
1 CTCAAACCTGAAATGATCT-GAACCTAAACTTAA
268613 CTCAAACCTGAAATGATCTGAACCTAAACTTAA
1 CTCAAACCTGAAATGATCTGAACCTAAACTTAA
268646 C
1 C
268647 CTGAATCAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
31 9 0.30
32 14 0.47
33 7 0.23
ACGTcount: A:0.42, C:0.26, G:0.09, T:0.23
Consensus pattern (33 bp):
CTCAAACCTGAAATGATCTGAACCTAAACTTAA
Found at i:270994 original size:2 final size:2
Alignment explanation
Indices: 270981--271039 Score: 109
Period size: 2 Copynumber: 29.5 Consensus size: 2
270971 ACTTAAATTC
*
270981 AT AT AT AC AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
271023 AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT A
271040 ATTTGTGGTC
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 55 1.00
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:278746 original size:105 final size:105
Alignment explanation
Indices: 278564--278774 Score: 404
Period size: 105 Copynumber: 2.0 Consensus size: 105
278554 CTTTGAGTTT
278564 TAGGGTCATATTTAATTTCTGGGTTTGGTTTTTAATGTTATGTAATTGTAATTGTGTTGTTTAAG
1 TAGGGTCATATTTAATTTCTGGGTTTGGTTTTTAATGTTATGTAATTGTAATTGTGTTGTTTAAG
*
278629 GATTTGGGTGTGTTTTGGTTTTGATTAATACTATGGATTG
66 GATTTGGGTGTGTTTTAGTTTTGATTAATACTATGGATTG
*
278669 TAGGGTCATATTTAATTTCTGGGTTTGGTTTTTAATGTTTTGTAATTGTAATTGTGTTGTTTAAG
1 TAGGGTCATATTTAATTTCTGGGTTTGGTTTTTAATGTTATGTAATTGTAATTGTGTTGTTTAAG
278734 GATTTGGGTGTGTTTTAGTTTTGATTAATACTATGGATTG
66 GATTTGGGTGTGTTTTAGTTTTGATTAATACTATGGATTG
278774 T
1 T
278775 GGCTTGGATT
Statistics
Matches: 104, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
105 104 1.00
ACGTcount: A:0.20, C:0.03, G:0.25, T:0.52
Consensus pattern (105 bp):
TAGGGTCATATTTAATTTCTGGGTTTGGTTTTTAATGTTATGTAATTGTAATTGTGTTGTTTAAG
GATTTGGGTGTGTTTTAGTTTTGATTAATACTATGGATTG
Found at i:278775 original size:51 final size:51
Alignment explanation
Indices: 278614--278775 Score: 131
Period size: 51 Copynumber: 3.1 Consensus size: 51
278604 TGTAATTGTA
*
278614 ATTGTGTTGTTTAAGGATTTGGGTGTGTTTTGGTTTTGATTAATACTATGG
1 ATTGTGTTGTTTAAGGATTTGGGTGTGTTTTAGTTTTGATTAATACTATGG
* * * * *
278665 ATTGTAGGGTCATATTTAA--TTTCTGGGTTTGGTTTTTAATGTTTTG--TAAT--TGT-A
1 ATTGT---GT--TGTTTAAGGATT-TGGGTGT-G-TTTT-A-GTTTTGATTAATACTATGG
278719 ATTGTGTTGTTTAAGGATTTGGGTGTGTTTTAGTTTTGATTAATACTATGG
1 ATTGTGTTGTTTAAGGATTTGGGTGTGTTTTAGTTTTGATTAATACTATGG
278770 ATTGTG
1 ATTGTG
278776 GCTTGGATTA
Statistics
Matches: 83, Mismatches: 11, Indels: 34
0.65 0.09 0.27
Matches are distributed among these distances:
46 6 0.07
47 1 0.01
48 8 0.10
49 7 0.08
50 8 0.10
51 15 0.18
54 9 0.11
55 8 0.10
56 7 0.08
57 8 0.10
59 6 0.07
ACGTcount: A:0.19, C:0.02, G:0.27, T:0.52
Consensus pattern (51 bp):
ATTGTGTTGTTTAAGGATTTGGGTGTGTTTTAGTTTTGATTAATACTATGG
Found at i:280314 original size:32 final size:32
Alignment explanation
Indices: 280273--280340 Score: 127
Period size: 32 Copynumber: 2.1 Consensus size: 32
280263 ATGAGCAAAT
280273 TAGTAAAAGGGCCTCTATGATACTCATACCGC
1 TAGTAAAAGGGCCTCTATGATACTCATACCGC
*
280305 TAGTAAAAGGGCCTCTATGATACTTATACCGC
1 TAGTAAAAGGGCCTCTATGATACTCATACCGC
280337 TAGT
1 TAGT
280341 TATTCTCAAG
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 35 1.00
ACGTcount: A:0.31, C:0.22, G:0.19, T:0.28
Consensus pattern (32 bp):
TAGTAAAAGGGCCTCTATGATACTCATACCGC
Found at i:293414 original size:18 final size:18
Alignment explanation
Indices: 293391--293426 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
293381 ATAATTGTAA
*
293391 TATCTAACTATAAATTAG
1 TATCTAAATATAAATTAG
*
293409 TATCTAAATATTAATTAG
1 TATCTAAATATAAATTAG
293427 ATAAAAAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.44, C:0.08, G:0.06, T:0.42
Consensus pattern (18 bp):
TATCTAAATATAAATTAG
Found at i:295126 original size:2 final size:2
Alignment explanation
Indices: 295119--295155 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
295109 AGAACCAACC
295119 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
295156 GTGCCGTATT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:306558 original size:15 final size:15
Alignment explanation
Indices: 306535--306573 Score: 69
Period size: 15 Copynumber: 2.6 Consensus size: 15
306525 CTGAACCCAA
*
306535 AACGTGACTGAGATT
1 AACGGGACTGAGATT
306550 AACGGGACTGAGATT
1 AACGGGACTGAGATT
306565 AACGGGACT
1 AACGGGACT
306574 TTCAAAGGAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.33, C:0.15, G:0.31, T:0.21
Consensus pattern (15 bp):
AACGGGACTGAGATT
Found at i:307670 original size:21 final size:21
Alignment explanation
Indices: 307628--307670 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
307618 CAAGCCATGA
* *
307628 ATACGTCCGAATACGTACAGG
1 ATACGTCAGAATACGTAAAGG
307649 ATACGTCAGAATA-GTCAAAGG
1 ATACGTCAGAATACGT-AAAGG
307670 A
1 A
307671 AAAAAGTAAG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 2 0.11
21 17 0.89
ACGTcount: A:0.40, C:0.19, G:0.23, T:0.19
Consensus pattern (21 bp):
ATACGTCAGAATACGTAAAGG
Found at i:308570 original size:21 final size:20
Alignment explanation
Indices: 308532--308570 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
308522 CAAAATAAAA
*
308532 TAAAAAAACGTAATTTTTTT
1 TAAAAAAACGTAAATTTTTT
*
308552 TAAAAAAATCTTAAATTTT
1 TAAAAAAA-CGTAAATTTT
308571 AATGAAAGAT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 8 0.50
21 8 0.50
ACGTcount: A:0.49, C:0.05, G:0.03, T:0.44
Consensus pattern (20 bp):
TAAAAAAACGTAAATTTTTT
Found at i:312796 original size:31 final size:30
Alignment explanation
Indices: 312734--312796 Score: 81
Period size: 30 Copynumber: 2.1 Consensus size: 30
312724 CTTTACATTT
* * * *
312734 TTTTTTTAATTTTAAATTTTAGTTTATTTA
1 TTTTTTAAATTTCAAATTTTAGTCTAGTTA
312764 TTTTTTAAATTTCAAATTTTAGGTCTAGTTA
1 TTTTTTAAATTTCAAATTTTA-GTCTAGTTA
312795 TT
1 TT
312797 AATACTGTCA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
30 19 0.68
31 9 0.32
ACGTcount: A:0.27, C:0.03, G:0.06, T:0.63
Consensus pattern (30 bp):
TTTTTTAAATTTCAAATTTTAGTCTAGTTA
Found at i:312997 original size:30 final size:30
Alignment explanation
Indices: 312963--313034 Score: 144
Period size: 30 Copynumber: 2.4 Consensus size: 30
312953 TTTTAAAAAT
312963 TGAAAAATACAAGGCTTAATCCTAAGATTG
1 TGAAAAATACAAGGCTTAATCCTAAGATTG
312993 TGAAAAATACAAGGCTTAATCCTAAGATTG
1 TGAAAAATACAAGGCTTAATCCTAAGATTG
313023 TGAAAAATACAA
1 TGAAAAATACAA
313035 AGACCTATAG
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 42 1.00
ACGTcount: A:0.47, C:0.12, G:0.15, T:0.25
Consensus pattern (30 bp):
TGAAAAATACAAGGCTTAATCCTAAGATTG
Found at i:320879 original size:5 final size:5
Alignment explanation
Indices: 320869--320894 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
320859 TCAAAAAGCT
320869 TATAA TATAA TATAA TATAA TATAA T
1 TATAA TATAA TATAA TATAA TATAA T
320895 TCCGAATAGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (5 bp):
TATAA
Found at i:321503 original size:32 final size:31
Alignment explanation
Indices: 321458--321528 Score: 81
Period size: 32 Copynumber: 2.2 Consensus size: 31
321448 ATTTAGTGCC
*
321458 TAAGTTTTGGTTTTATTGTTT-AATTTGGTAGT
1 TAAGTTTTGGTTTT-TT-TTTCAATTTGGCAGT
*
321490 TAAGTTTTTGTTTTTTTTTCCAATTTGGCAGT
1 TAAGTTTTGGTTTTTTTTT-CAATTTGGCAGT
*
321522 TACGTTT
1 TAAGTTT
321529 CACTTTTAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
30 3 0.09
31 2 0.06
32 29 0.85
ACGTcount: A:0.17, C:0.06, G:0.18, T:0.59
Consensus pattern (31 bp):
TAAGTTTTGGTTTTTTTTTCAATTTGGCAGT
Found at i:322103 original size:6 final size:6
Alignment explanation
Indices: 322092--322117 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
322082 CTATATAACA
322092 ACATAT ACATAT ACATAT ACATAT AC
1 ACATAT ACATAT ACATAT ACATAT AC
322118 GTGGATGACA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.50, C:0.19, G:0.00, T:0.31
Consensus pattern (6 bp):
ACATAT
Found at i:323970 original size:5 final size:5
Alignment explanation
Indices: 323960--323984 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
323950 GAGGGATTGA
323960 TTTTC TTTTC TTTTC TTTTC TTTTC
1 TTTTC TTTTC TTTTC TTTTC TTTTC
323985 CGTCAGCAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (5 bp):
TTTTC
Found at i:326076 original size:2 final size:2
Alignment explanation
Indices: 326069--326106 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
326059 ATATTCTCGA
326069 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
326107 TGATAAAAGT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:326198 original size:18 final size:18
Alignment explanation
Indices: 326177--326216 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
326167 ATATTATATG
326177 ATATGATTACATTATAAA
1 ATATGATTACATTATAAA
* *
326195 ATATTATTATATTATAAA
1 ATATGATTACATTATAAA
326213 ATAT
1 ATAT
326217 CAAATCATAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.50, C:0.03, G:0.03, T:0.45
Consensus pattern (18 bp):
ATATGATTACATTATAAA
Found at i:328488 original size:18 final size:19
Alignment explanation
Indices: 328465--328501 Score: 51
Period size: 18 Copynumber: 2.0 Consensus size: 19
328455 GTGAAGAGAG
328465 TAAAGG-AT-ATCTAGAAAT
1 TAAAGGTATGATCTA-AAAT
328483 TAAAGGTATGATCTAAAAT
1 TAAAGGTATGATCTAAAAT
328502 GAACCACGAG
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
18 6 0.35
19 6 0.35
20 5 0.29
ACGTcount: A:0.49, C:0.05, G:0.16, T:0.30
Consensus pattern (19 bp):
TAAAGGTATGATCTAAAAT
Found at i:328765 original size:7 final size:7
Alignment explanation
Indices: 328753--328783 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
328743 ATGTGTGTGT
328753 AAATACA
1 AAATACA
328760 AAATACA
1 AAATACA
328767 AAATACA
1 AAATACA
328774 AAATA-A
1 AAATACA
328780 AAAT
1 AAAT
328784 GTATTCTTGA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 5 0.21
7 19 0.79
ACGTcount: A:0.74, C:0.10, G:0.00, T:0.16
Consensus pattern (7 bp):
AAATACA
Found at i:335130 original size:13 final size:13
Alignment explanation
Indices: 335112--335138 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
335102 ATTATTGAAG
335112 TGTGGTGTGCTAC
1 TGTGGTGTGCTAC
335125 TGTGGTGTGCTAC
1 TGTGGTGTGCTAC
335138 T
1 T
335139 CATACATCTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.07, C:0.15, G:0.37, T:0.41
Consensus pattern (13 bp):
TGTGGTGTGCTAC
Found at i:381198 original size:29 final size:30
Alignment explanation
Indices: 381139--381199 Score: 70
Period size: 29 Copynumber: 2.1 Consensus size: 30
381129 CTTAAATAAA
***
381139 AATTTTTAAATAATTCAATAACCATTTTAT
1 AATTTTTAAATAATTCAATAACCAAAATAT
* *
381169 AATTTTTTAA-AATTGAATAACCAAAATAT
1 AATTTTTAAATAATTCAATAACCAAAATAT
381198 AA
1 AA
381200 ATATATTAAT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
29 17 0.65
30 9 0.35
ACGTcount: A:0.49, C:0.08, G:0.02, T:0.41
Consensus pattern (30 bp):
AATTTTTAAATAATTCAATAACCAAAATAT
Found at i:384229 original size:25 final size:26
Alignment explanation
Indices: 384201--384258 Score: 66
Period size: 25 Copynumber: 2.3 Consensus size: 26
384191 ACATATTTGA
384201 TTTAACATGTTA-AAAAAATAA-TCTT
1 TTTAA-ATGTTATAAAAAATAATTCTT
* *
384226 TTTAAATTTTATAAAAATTAATTCTT
1 TTTAAATGTTATAAAAAATAATTCTT
*
384252 TTAAAAT
1 TTTAAAT
384259 TTGTGATTAT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
24 5 0.18
25 13 0.46
26 10 0.36
ACGTcount: A:0.47, C:0.05, G:0.02, T:0.47
Consensus pattern (26 bp):
TTTAAATGTTATAAAAAATAATTCTT
Found at i:387823 original size:663 final size:665
Alignment explanation
Indices: 386534--387849 Score: 1612
Period size: 663 Copynumber: 2.0 Consensus size: 665
386524 TTATTTTTTA
*
386534 TTTTGCTTTTCATTTTCAACAAAGGTATTCGTGTCTCATTTGCCATCCAATGGTTAAAATTCATA
1 TTTTGCTTTTCATTTTCAACAAAGGTATTCGTATCTCATTTG-C--CCAATGGTTAAAATTCATA
* * *
386599 AAGTAAACGAGATATATTTTTACCCATTGACTTGGTGAAACAAGGATCATGAAGAAAAAAACACC
63 AAGAAAACGAGATATATTTTTACCCATTGACTTGGTGAAACAAGGACCATAAAGAAAAAAACACC
* *
386664 TCCATATCAATTGAAAGAATATTTACCGATTGAATGATAGTTTGATTAGTGTGAGTATCATTATC
128 TCCATATCAATTGAAAGAATATTCACCGA-TGAATG--AGATTGATTA--GTGAGTATCATTATC
* * * * **
386729 AATATAGGAGGATATGAATCGAGTTTGTTGAGGCGCATTATCCTTCTATTTATAGATTAGAGAGC
188 AAGATAGGAGGACATGAATCGAGTGTGTTAAAACGCATTATCCTTCTATTTATAGATTAGAGAGC
* * ** *
386794 GACTATGAATAGTTTTAAATATTGTATAAAAAAAAATGATTAAAACCTATAATGAAATAATTTAA
253 GAATATGAATAGTTCTAAATATTGTATAAAAAAAAAAAATTAAAACATATAATGAAATAATTTAA
* * *
386859 AAAAAATATATTTGAATAATTCACCTTAAAACTAATAATGTTTATGTAATATAATGCTAATCCAA
318 AAAAAATATATTTGAATAATTCACCTTAAAAATAATAATATTTATGTAATATAATGCAAATCCAA
**
386924 TTTTCATCCAAATAGGTTAATCTCATTTCGATACGAAGAAAAACTTAATTTAAGTTGAGCTATAT
383 TTTTCATCCAAATAACTTAATCTCATTTCGATACGAAGAAAAACTTAATTTAAGTTGAGCTATAT
386989 TTTGGTTTATAGACAGTGTATTATAATCAAGTATTTGAATGTTGGATGTATATAAATTTAAAGAA
448 TTTGGTTTATAGACAGTGTATTATAATCAAGTATTTGAATGTTGGATGTATATAAATTTAAAGAA
* * * * * *
387054 GTGTTGAATGTTTTTCTGTGTGTCCCTTCAAATGGGTTAATTTTATATATTTATATCATACAATC
513 ATGTTGAATGATTTTCCGTGCGTCCCTTCAAATGGGTTAATTTTACATACTTATATCATACAATC
* * * *
387119 ATTATTTATAAATATGATATGCTAGATAAGTCTCTATGCATG-GGACACATATCTTATCTTAAGG
578 ACTATTTATAAATATGATAAGCTAGATAAGTCTCCATGCATGAGGACACATA-CTTACCTTAAGG
387183 TTAAATTACTTTTTCTTTTTTTCT
642 TTAAATTACTTTTTCTTTTTTTCT
387207 TTTTGCTTTTCATTTTCAACAAAGGTATTCGTATCTCATTTG-CC-A-GGTT-AAATTCATAAAG
1 TTTTGCTTTTCATTTTCAACAAAGGTATTCGTATCTCATTTGCCCAATGGTTAAAATTCATAAAG
* * * *
387268 AAAACTATATAT-TTTTTACCCATTGATTTGGTGAAACAAGGACCATAAAGGAAAAAACACCT-C
66 AAAACGAGATATATTTTTACCCATTGACTTGGTGAAACAAGGACCATAAAGAAAAAAACACCTCC
* ** *
387331 ATATCAATTGAAAGAATATTCA-C-A-G-CTG-GATTGA-TA-TGAGTATTGTTGTCAACGA-AG
131 ATATCAATTGAAAGAATATTCACCGATGAATGAGATTGATTAGTGAGTATCATTATCAA-GATAG
* * * * *
387388 GAGGGCATGGATCGAGTGTGTTAAAATGCATTATCCTTCTATTTATAGGTTAGGGAG-GTAATAT
195 GAGGACATGAATCGAGTGTGTTAAAACGCATTATCCTTCTATTTATAGATTAGAGAGCG-AATAT
* * *
387452 GAGTAGTTCTAAGTATTAATTGTGTAAAAAAAAACCAAATATAATCCGAACATATAATTAAATAA
259 GAATAGTTCTAA--A-T-ATTGTATAAAAAAAAA--AAAT-TAA----AACATATAATGAAATAA
* ** * *
387517 -TTCAAAAATTTTTTTTTGAATAATTCACCTTAAAAATAATAATATTTATGTAATATAATGCAAA
313 TTTAAAAAAAATATATTTGAATAATTCACCTTAAAAATAATAATATTTATGTAATATAATGCAAA
387581 TCCAATTTTCATCCAAATAACTTAATCTCAATTT-GATACGAAGAAAAACTTAATTTAAAGTTGA
378 TCCAATTTTCATCCAAATAACTTAATCTC-ATTTCGATACGAAGAAAAACTTAATTT-AAGTTGA
* * * *
387645 GCTATTTTTTGGTTTATAGATAGTGTATTGTAA-CTAAGTATTTGGATGTTGGATGTATATAAAT
441 GCTATATTTTGGTTTATAGACAGTGTATTATAATC-AAGTATTTGAATGTTGGATGTATATAAAT
* * * *
387709 TTGAAA-AAATGTTGAGTGATTTTCCGTGCGT-TCTCTCAGATGGGTTAATTTTACGTACTTATA
505 TT-AAAGAAATGTTGAATGATTTTCCGTGCGTCCCT-TCAAATGGGTTAATTTTACATACTTATA
* * * * * * * *
387772 TGATACAATCACTGTTTATAAATGTGATAAGCTAGGTAGGTGTCCATGCATGATGACACGTACTT
568 TCATACAATCACTATTTATAAATATGATAAGCTAGATAAGTCTCCATGCATGAGGACACATACTT
*
387837 ACCTTAGGGTTAA
633 ACCTTAAGGTTAA
387850 CATTTGTATA
Statistics
Matches: 554, Mismatches: 70, Indels: 48
0.82 0.10 0.07
Matches are distributed among these distances:
651 1 0.00
652 76 0.14
653 1 0.00
654 1 0.00
655 3 0.01
656 20 0.04
658 2 0.00
659 5 0.01
660 1 0.00
662 109 0.20
663 188 0.34
664 32 0.06
665 46 0.08
666 21 0.04
667 4 0.01
668 1 0.00
669 2 0.00
673 41 0.07
ACGTcount: A:0.36, C:0.12, G:0.15, T:0.37
Consensus pattern (665 bp):
TTTTGCTTTTCATTTTCAACAAAGGTATTCGTATCTCATTTGCCCAATGGTTAAAATTCATAAAG
AAAACGAGATATATTTTTACCCATTGACTTGGTGAAACAAGGACCATAAAGAAAAAAACACCTCC
ATATCAATTGAAAGAATATTCACCGATGAATGAGATTGATTAGTGAGTATCATTATCAAGATAGG
AGGACATGAATCGAGTGTGTTAAAACGCATTATCCTTCTATTTATAGATTAGAGAGCGAATATGA
ATAGTTCTAAATATTGTATAAAAAAAAAAAATTAAAACATATAATGAAATAATTTAAAAAAAATA
TATTTGAATAATTCACCTTAAAAATAATAATATTTATGTAATATAATGCAAATCCAATTTTCATC
CAAATAACTTAATCTCATTTCGATACGAAGAAAAACTTAATTTAAGTTGAGCTATATTTTGGTTT
ATAGACAGTGTATTATAATCAAGTATTTGAATGTTGGATGTATATAAATTTAAAGAAATGTTGAA
TGATTTTCCGTGCGTCCCTTCAAATGGGTTAATTTTACATACTTATATCATACAATCACTATTTA
TAAATATGATAAGCTAGATAAGTCTCCATGCATGAGGACACATACTTACCTTAAGGTTAAATTAC
TTTTTCTTTTTTTCT
Found at i:389660 original size:78 final size:78
Alignment explanation
Indices: 389562--389717 Score: 303
Period size: 78 Copynumber: 2.0 Consensus size: 78
389552 CTAATATAAA
389562 GGTTTTTGGGATTGCCCCAAAAATATGATTAATTAAACTGATACTCCATTATACTAATATATAAT
1 GGTTTTTGGGATTGCCCCAAAAATATGATTAATTAAACTGATACTCCATTATACTAATATATAAT
389627 TTTATAAAAAATT
66 TTTATAAAAAATT
*
389640 GGTTTTTGGGATTGCCCCAAAAATATGATTAATTAAACTGATATTCCATTATACTAATATATAAT
1 GGTTTTTGGGATTGCCCCAAAAATATGATTAATTAAACTGATACTCCATTATACTAATATATAAT
389705 TTTATAAAAAATT
66 TTTATAAAAAATT
389718 AAGAGATTAA
Statistics
Matches: 77, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
78 77 1.00
ACGTcount: A:0.40, C:0.11, G:0.10, T:0.39
Consensus pattern (78 bp):
GGTTTTTGGGATTGCCCCAAAAATATGATTAATTAAACTGATACTCCATTATACTAATATATAAT
TTTATAAAAAATT
Found at i:403892 original size:18 final size:18
Alignment explanation
Indices: 403847--403892 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
403837 ATTTAATTAA
403847 TCAATTGATTAACCGAAT
1 TCAATTGATTAACCGAAT
* *
403865 TCGATCGATTAACCGAAT
1 TCAATTGATTAACCGAAT
403883 T-AATTTGATT
1 TCAA-TTGATT
403893 TTACCTGAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
17 1 0.04
18 22 0.96
ACGTcount: A:0.35, C:0.15, G:0.13, T:0.37
Consensus pattern (18 bp):
TCAATTGATTAACCGAAT
Found at i:404350 original size:2 final size:2
Alignment explanation
Indices: 404343--404370 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
404333 AATTAGTTGA
404343 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
404371 GTATTTTTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:421396 original size:26 final size:25
Alignment explanation
Indices: 421367--421426 Score: 70
Period size: 24 Copynumber: 2.4 Consensus size: 25
421357 ATGATGATAT
421367 ATTTTATATTTTAGAATTTTAA-ATTA
1 ATTTTATATTTT--AATTTTAATATTA
*
421393 ATTTTATATGTTAATTTTAATATTA
1 ATTTTATATTTTAATTTTAATATTA
*
421418 A-GTTATATT
1 ATTTTATATT
421427 ATATATGATC
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
24 14 0.47
25 5 0.17
26 11 0.37
ACGTcount: A:0.37, C:0.00, G:0.05, T:0.58
Consensus pattern (25 bp):
ATTTTATATTTTAATTTTAATATTA
Found at i:430445 original size:6 final size:6
Alignment explanation
Indices: 430434--430468 Score: 52
Period size: 6 Copynumber: 5.8 Consensus size: 6
430424 AATAAAAGAC
* *
430434 AAGGAG AAGGAG AAGGAG AAGGAG GAGGAG GAGGA
1 AAGGAG AAGGAG AAGGAG AAGGAG AAGGAG AAGGA
430469 CCGCCGTGCA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.46, C:0.00, G:0.54, T:0.00
Consensus pattern (6 bp):
AAGGAG
Found at i:445192 original size:2 final size:2
Alignment explanation
Indices: 445185--445215 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
445175 TCTATTATGC
445185 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
445216 NNNNNNNNNN
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:447173 original size:214 final size:215
Alignment explanation
Indices: 446051--448043 Score: 2193
Period size: 216 Copynumber: 9.3 Consensus size: 215
446041 CTTGTATCAG
* ** * * * * * * * * * *
446051 GACCAAATGATGTGATTTCAAGAGCATGGACTATTCGAAAAATTGATTGAAGGAACGGATTGACT
1 GACCAAATGATGCGATTTCCCGAGCAAGGATTGTTCGAAAAATTGCTCGAGGGAAAGTATCGTCT
** **
446116 CT-AATACTTTAAGGAACCAAAGTTATAAAAGAACTCGTAAAAGTTTGATGAGTTCAGAAGTTAA
66 -TAAATACTTTAAGGAACCAAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGTTCAGAAGTTCG
* * *
446180 TCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGATTTTAATTCAAACATCAAAA-TATG
130 TCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAACT-TG
446244 TTTACAAAATGACAAACTATTTA
194 TTTACAAAATGAC-AACTATTTA
* * ** * * *
446267 GACCAGATGAAGTTATTTCCCGAGCATGGATTGTTCAAAAAATTGCTCGAGGGGAAGTATCGTCT
1 GACCAAATGATGCGATTTCCCGAGCAAGGATTGTTCGAAAAATTGCTCGAGGGAAAGTATCGTCT
* ** * * ** *
446332 TGAATACTTTAAGGAACCGGAGTTAGAAAAGAAATTATAAAAGTTTGACAAGTTCAGAAGTTCAT
66 TAAATACTTTAAGGAACCAAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGTTCAGAAGTTCGT
* * **
446397 CCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGATTTTAATTCAAACACCAAATTTTGTT
131 CCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAACTTGTT
446462 TACAAAATGACAAACTATTTA
196 TACAAAATGAC-AACTATTTA
* * ** * * *
446483 GACTAAATGATGCGATTTCCCGAGCATGGATTACTCGAAAAATTGCTCGAAGGAATGGATCGTC-
1 GACCAAATGATGCGATTTCCCGAGCAAGGATTGTTCGAAAAATTGCTCGAGGGAAAGTATCGTCT
* ** * *
446547 TAGATTACTTTAAGGAACTGAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGTTCGGAAGTTTG
66 TA-AATACTTTAAGGAACCAAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGTTCAGAAGTTCG
* * *
446612 TCAAAGAACCAAGAGAGAAACAATTCTCATGTAAATAAGTTTTTAATCCAAAGACCAAAACTTGT
130 TCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAACTTGT
* * * *
446677 TTATAAAATGAGAAACTATGTG
195 TTACAAAATGA-CAACTATTTA
** * * * * * ** * * *
446699 GACCAAATGATGCGATTTCATGAGCACGGACTATTCAAAAAATTGATCGAAAGAATGGATTGTCT
1 GACCAAATGATGCGATTTCCCGAGCAAGGATTGTTCGAAAAATTGCTCGAGGGAAAGTATCGTCT
* * *
446764 CT-AATACTTTAAGGAA-CAGAAGATATAAAAGAACTCGTAAAATTTTGACAAGTTCAAAAGTTC
66 -TAAATACTTTAAGGAACCA-AAGTTATAAAAGAACTCGTAAAAGTTTGACAAGTTCAGAAGTTC
* * * * * * * * *
446827 ATCCAATAACTAAGAGAGAAGCATTTCTCATGTAAATAAGATATTAATTTAAAGACCAAAACTTG
129 GTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAACTTG
*
446892 TTTGCAAAATGACAACTATTTA
194 TTTACAAAATGACAACTATTTA
* ** * * *
446914 GATCAAATGATTAGATTTCCAGAGCAAGGAATGTTCGAAAAATTGCTCGAGGGAAAGTATTGTCT
1 GACCAAATGATGCGATTTCCCGAGCAAGGATTGTTCGAAAAATTGCTCGAGGGAAAGTATCGTCT
* * * *
446979 TAAATACTTCAAGGAACCAAAGTTATAAAAGAACTCGTAAAAGTTTAACAAGTTCAAAAGTGCGT
66 TAAATACTTTAAGGAACCAAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGTTCAGAAGTTCGT
* * *
447044 CTAAGAACCAAGAGAGAAACAATTCTCACATAAATAAG-TTTTAATTTAAAGACCAAAACTTGTT
131 CCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAACTTGTT
447108 TACAAAATGACAACTATTTA
196 TACAAAATGACAACTATTTA
* * * *
447128 GATCAAATGATGCGATTTCCCGAGCAAGTATTGTTTGAAAAATTGCTTGAGGGAAAGTATCGTCT
1 GACCAAATGATGCGATTTCCCGAGCAAGGATTGTTCGAAAAATTGCTCGAGGGAAAGTATCGTCT
* * * * **
447193 TAACTACTTTAAGGAACCAAAGTTATAAAAGAAATCGTTATAGTTTGACAAGTTTGGAAGTTCGT
66 TAAATACTTTAAGGAACCAAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGTTCAGAAGTTCGT
* * *
447258 -CAATGAACCAAGAGAGAAACAATTCTTACGTAAATAAGTTTTTAATCCAAAGCCCAAAACTTGT
131 CCAA-GAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAACTTGT
* *
447322 TTAAAAAATGACAACTATTAA
195 TTACAAAATGACAACTATTTA
** * * * * * * * *
447343 GACCAAATGATGCGATTTCATG-GGAATGGAATATTCGAAAAATTGATAGAAGG-AATTGATTGT
1 GACCAAATGATGCGATTTCCCGAGCAA-GGATTGTTCGAAAAATTGCTCGAGGGAAAGT-ATCGT
* * * * *
447406 CTCT-AATACTTTAAGGAACCAAAGTTATAAAAGAACTTGTAAAATTTTAACTAGTTCAGAAGTG
64 CT-TAAATACTTTAAGGAACCAAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGTTCAGAAGTT
* * *
447470 CATCTAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAG-TTTTAATTTAAAGACCAAAACTT
128 CGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAACTT
447534 GTTTACAAAATGACAACTATTTA
193 GTTTACAAAATGACAACTATTTA
* * * * *
447557 GATCAAATGATGCGATTTCCCGAGCAAGTATTGTTTGAAAAACTGCTTGAGGGAAAGTATCGTCT
1 GACCAAATGATGCGATTTCCCGAGCAAGGATTGTTCGAAAAATTGCTCGAGGGAAAGTATCGTCT
* * * * * **
447622 TAACTACTTTAAGAAACCAAAGTTATAAAAGAAATTGTAATAGTTTGACAAGTTTGGAAGTTCGT
66 TAAATACTTTAAGGAACCAAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGTTCAGAAGTTCGT
* * * *
447687 CAAAGAACCAAGAGAGAAACAATTCTTACGTAAATAAGTTTTTAATCCAAAGCCCAAAACTTGTT
131 CCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAACTTGTT
* *
447752 TAAAAAATGACAAACTATTAA
196 TACAAAATGAC-AACTATTTA
* * * * * * * * *
447773 GACCAAATGATGCTATTTCACGAGCATGGAATAT-TTC-AAAAATTGATCGAAGGAATGGATTGC
1 GACCAAATGATGCGATTTCCCGAGCAAGG-AT-TGTTCGAAAAATTGCTCGAGGGAAAGTATCGT
** *
447836 CTCT-AATACTTTAAGGAACTGAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGTTCGGAAGTT
64 CT-TAAATACTTTAAGGAACCAAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGTTCAGAAGTT
* * *
447900 TGTCC-AGGA-CATAGAGAGAAA-AATTCTCACGTAAATAAGTTTTTAATTTAAAGACCAAAACT
128 CGTCCAAGAACCA-AGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAACT
*
447962 TATTTACAAAATGACAACTATTTA
192 TGTTTACAAAATGACAACTATTTA
* * * * * *
447986 GATCAAATGGTGCGATTTACCGAGCATGTATTGTTTGAAAAATTGCTCGAGGGAAAGT
1 GACCAAATGATGCGATTTCCCGAGCAAGGATTGTTCGAAAAATTGCTCGAGGGAAAGT
448044 GACATGAGCT
Statistics
Matches: 1495, Mismatches: 256, Indels: 55
0.83 0.14 0.03
Matches are distributed among these distances:
211 1 0.00
212 4 0.00
213 51 0.03
214 419 0.28
215 365 0.24
216 647 0.43
217 6 0.00
218 2 0.00
ACGTcount: A:0.41, C:0.14, G:0.17, T:0.28
Consensus pattern (215 bp):
GACCAAATGATGCGATTTCCCGAGCAAGGATTGTTCGAAAAATTGCTCGAGGGAAAGTATCGTCT
TAAATACTTTAAGGAACCAAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGTTCAGAAGTTCGT
CCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAACTTGTT
TACAAAATGACAACTATTTA
Found at i:447352 original size:429 final size:431
Alignment explanation
Indices: 446051--448043 Score: 2447
Period size: 429 Copynumber: 4.6 Consensus size: 431
446041 CTTGTATCAG
* * * * * *
446051 GACCAAATGATGTGATTTCAAGAGCATGGACTATTCGAAAAATTGATTGAAGGAACGGATTGACT
1 GACCAAATGATGCGATTTCCAGAGCATGGAATATTCGAAAAATTGATCGAAGGAAAGGATTGTCT
** **
446116 CTAATACTTTAAGGAACCAAAGTTATAAAAGAACTCGTAAAAGTTTGATGAGTTCAGAAGTTAAT
66 CTAATACTTTAAGGAACCAAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGTTCAGAAGTTCGT
* * * * *
446181 CCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGATTTTAATTCAAACATCAAAA-TATGT
131 CTAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTTAAAGACCAAAACT-TGT
* * * ** * * **
446245 TTACAAAATGACAAACTATTTAGACCAGATGAAGTTATTTCCCGAGCATGGATTGTTCAAAAAAT
195 TTACAAAATGAC-AACTATTTAGATCAAATGATGCGATTTCCCGAGCAAGTATTGTTTGAAAAAT
* ** * **
446310 TGCTCGAGGGGAAGTATCGTCTTGAATACTTTAAGGAACCGGAGTTAGAAAAGAAATTATAAAAG
259 TGCTCGAGGGAAAGTATCGTCTT-AATACTTTAAGGAACCAAAGTTATAAAAGAAATCGTAAAAG
446375 TTTGACAAGTTCAGAAGTTCATCCAA-GAACCAAGAGAGAAACAATTCTCACGTAAATAAGATTT
323 TTTGACAAGTTCAGAAGTTCATCCAATGAACCAAGAGAGAAACAATTCTCACGTAAATAAGATTT
* ** * *
446439 TAATTCAAA-CACCAAATTTTGTTTACAAAATGACAAACTATTTA
388 TAATCCAAAGC-CCAAAACTTGTTTAAAAAATGACAAACTATTAA
* * * * * * *
446483 GACTAAATGATGCGATTTCCCGAGCATGGATTACTCGAAAAATTGCTCGAAGGAATGGATCGTCT
1 GACCAAATGATGCGATTTCCAGAGCATGGAATATTCGAAAAATTGATCGAAGGAAAGGATTGTCT
** * ** * *
446548 AGATTACTTTAAGGAACTGAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGTTCGGAAGTTTGT
66 CTAATACTTTAAGGAACCAAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGTTCAGAAGTTCGT
* * **
446613 CAAAGAACCAAGAGAGAAACAATTCTCATGTAAATAAGTTTTTAATCCAAAGACCAAAACTTGTT
131 CTAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTTAAAGACCAAAACTTGTT
* * * * * ** * * * * **
446678 TATAAAATGAGAAACTATGTGGACCAAATGATGCGATTTCATGAGCACGGACTATTCAAAAAATT
196 TACAAAATGA-CAACTATTTAGATCAAATGATGCGATTTCCCGAGCAAGTATTGTTTGAAAAATT
* ** * * * * * *
446743 GATCGAAAGAATGGATTGTCTCTAATACTTTAAGGAA-CAGAAGATATAAAAGAACTCGTAAAAT
260 GCTCGAGGGAAAGTATCGTCT-TAATACTTTAAGGAACCA-AAGTTATAAAAGAAATCGTAAAAG
* * * * * *
446807 TTTGACAAGTTCAAAAGTTCATCCAAT-AACTAAGAGAGAAGCATTTCTCATGTAAATAAGATAT
323 TTTGACAAGTTCAGAAGTTCATCCAATGAACCAAGAGAGAAACAATTCTCACGTAAATAAGATTT
** * ** *
446871 TAATTTAAAGACCAAAACTTGTTTGCAAAATGAC-AACTATTTA
388 TAATCCAAAGCCCAAAACTTGTTTAAAAAATGACAAACTATTAA
* ** * * * * *
446914 GATCAAATGATTAGATTTCCAGAGCAAGGAATGTTCGAAAAATTGCTCGAGGGAAAGTATTGTCT
1 GACCAAATGATGCGATTTCCAGAGCATGGAATATTCGAAAAATTGATCGAAGGAAAGGATTGTCT
* * * *
446979 -TAAATACTTCAAGGAACCAAAGTTATAAAAGAACTCGTAAAAGTTTAACAAGTTCAAAAGTGCG
66 CT-AATACTTTAAGGAACCAAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGTTCAGAAGTTCG
*
447043 TCTAAGAACCAAGAGAGAAACAATTCTCACATAAATAAG-TTTTAATTTAAAGACCAAAACTTGT
130 TCTAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTTAAAGACCAAAACTTGT
447107 TTACAAAATGACAACTATTTAGATCAAATGATGCGATTTCCCGAGCAAGTATTGTTTGAAAAATT
195 TTACAAAATGACAACTATTTAGATCAAATGATGCGATTTCCCGAGCAAGTATTGTTTGAAAAATT
* * *
447172 GCTTGAGGGAAAGTATCGTCTTAACTACTTTAAGGAACCAAAGTTATAAAAGAAATCGTTATAGT
260 GCTCGAGGGAAAGTATCGTCTTAA-TACTTTAAGGAACCAAAGTTATAAAAGAAATCGTAAAAGT
** * * *
447237 TTGACAAGTTTGGAAGTTCGT-CAATGAACCAAGAGAGAAACAATTCTTACGTAAATAAGTTTTT
324 TTGACAAGTTCAGAAGTTCATCCAATGAACCAAGAGAGAAACAATTCTCACGTAAATAAGATTTT
447301 AATCCAAAGCCCAAAACTTGTTTAAAAAATGAC-AACTATTAA
389 AATCCAAAGCCCAAAACTTGTTTAAAAAATGACAAACTATTAA
* * * **
447343 GACCAAATGATGCGATTT-CATGGGAATGGAATATTCGAAAAATTGATAGAAGGAATTGATTGTC
1 GACCAAATGATGCGATTTCCA-GAGCATGGAATATTCGAAAAATTGATCGAAGGAAAGGATTGTC
* * * * * *
447407 TCTAATACTTTAAGGAACCAAAGTTATAAAAGAACTTGTAAAATTTTAACTAGTTCAGAAGTGCA
65 TCTAATACTTTAAGGAACCAAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGTTCAGAAGTTCG
447472 TCTAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAG-TTTTAATTTAAAGACCAAAACTTGT
130 TCTAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTTAAAGACCAAAACTTGT
*
447536 TTACAAAATGACAACTATTTAGATCAAATGATGCGATTTCCCGAGCAAGTATTGTTTGAAAAACT
195 TTACAAAATGACAACTATTTAGATCAAATGATGCGATTTCCCGAGCAAGTATTGTTTGAAAAATT
* * * *
447601 GCTTGAGGGAAAGTATCGTCTTAACTACTTTAAGAAACCAAAGTTATAAAAGAAATTGTAATAGT
260 GCTCGAGGGAAAGTATCGTCTTAA-TACTTTAAGGAACCAAAGTTATAAAAGAAATCGTAAAAGT
** * * * *
447666 TTGACAAGTTTGGAAGTTCGT-CAAAGAACCAAGAGAGAAACAATTCTTACGTAAATAAGTTTTT
324 TTGACAAGTTCAGAAGTTCATCCAATGAACCAAGAGAGAAACAATTCTCACGTAAATAAGATTTT
447730 AATCCAAAGCCCAAAACTTGTTTAAAAAATGACAAACTATTAA
389 AATCCAAAGCCCAAAACTTGTTTAAAAAATGACAAACTATTAA
* * *
447773 GACCAAATGATGCTATTT-CACGAGCATGGAATATTTC-AAAAATTGATCGAAGGAATGGATTGC
1 GACCAAATGATGCGATTTCCA-GAGCATGGAATA-TTCGAAAAATTGATCGAAGGAAAGGATTGT
** * *
447836 CTCTAATACTTTAAGGAACTGAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGTTCGGAAGTTT
64 CTCTAATACTTTAAGGAACCAAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGTTCAGAAGTTC
* *
447901 GTC-CAGGA-CATAGAGAGAAA-AATTCTCACGTAAATAAGTTTTTAATTTAAAGACCAAAACTT
129 GTCTAAGAACCA-AGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTTAAAGACCAAAACTT
* * * *
447963 ATTTACAAAATGACAACTATTTAGATCAAATGGTGCGATTTACCGAGCATGTATTGTTTGAAAAA
193 GTTTACAAAATGACAACTATTTAGATCAAATGATGCGATTTCCCGAGCAAGTATTGTTTGAAAAA
448028 TTGCTCGAGGGAAAGT
258 TTGCTCGAGGGAAAGT
448044 GACATGAGCT
Statistics
Matches: 1359, Mismatches: 186, Indels: 35
0.86 0.12 0.02
Matches are distributed among these distances:
428 29 0.02
429 672 0.49
430 155 0.11
431 154 0.11
432 347 0.26
433 2 0.00
ACGTcount: A:0.41, C:0.14, G:0.17, T:0.28
Consensus pattern (431 bp):
GACCAAATGATGCGATTTCCAGAGCATGGAATATTCGAAAAATTGATCGAAGGAAAGGATTGTCT
CTAATACTTTAAGGAACCAAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGTTCAGAAGTTCGT
CTAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTTAAAGACCAAAACTTGTT
TACAAAATGACAACTATTTAGATCAAATGATGCGATTTCCCGAGCAAGTATTGTTTGAAAAATTG
CTCGAGGGAAAGTATCGTCTTAATACTTTAAGGAACCAAAGTTATAAAAGAAATCGTAAAAGTTT
GACAAGTTCAGAAGTTCATCCAATGAACCAAGAGAGAAACAATTCTCACGTAAATAAGATTTTAA
TCCAAAGCCCAAAACTTGTTTAAAAAATGACAAACTATTAA
Found at i:450346 original size:25 final size:24
Alignment explanation
Indices: 450300--450346 Score: 58
Period size: 25 Copynumber: 1.9 Consensus size: 24
450290 AAACAACTTC
* **
450300 TAAAAAAAACTCAAGAGCAATTCT
1 TAAAAAAAACTCAAAAAAAATTCT
450324 TAAAGAAAAACTCAAAAAAAATT
1 TAAA-AAAAACTCAAAAAAAATT
450347 ATTATTATCT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
24 4 0.21
25 15 0.79
ACGTcount: A:0.62, C:0.13, G:0.06, T:0.19
Consensus pattern (24 bp):
TAAAAAAAACTCAAAAAAAATTCT
Found at i:462196 original size:38 final size:39
Alignment explanation
Indices: 462153--462235 Score: 150
Period size: 38 Copynumber: 2.2 Consensus size: 39
462143 TGCATGTACC
462153 TTAAAAACAACTATTAAATATGTAT-AAAATAAGACACA
1 TTAAAAACAACTATTAAATATGTATCAAAATAAGACACA
*
462191 TTAAAAACAACTATTAAATATGTATCAAACTAAGACACA
1 TTAAAAACAACTATTAAATATGTATCAAAATAAGACACA
462230 TTAAAA
1 TTAAAA
462236 CCCTATTTAA
Statistics
Matches: 43, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
38 25 0.58
39 18 0.42
ACGTcount: A:0.57, C:0.12, G:0.05, T:0.27
Consensus pattern (39 bp):
TTAAAAACAACTATTAAATATGTATCAAAATAAGACACA
Found at i:463169 original size:12 final size:12
Alignment explanation
Indices: 463152--463180 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
463142 TGAGAATAGT
463152 AGCTTCGTTCCA
1 AGCTTCGTTCCA
463164 AGCTTCGTTCCA
1 AGCTTCGTTCCA
463176 AGCTT
1 AGCTT
463181 TCCCCACAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.17, C:0.31, G:0.17, T:0.34
Consensus pattern (12 bp):
AGCTTCGTTCCA
Found at i:465355 original size:31 final size:28
Alignment explanation
Indices: 465320--465376 Score: 78
Period size: 31 Copynumber: 1.9 Consensus size: 28
465310 TTCATCTTTT
*
465320 TCTTTTCTCTCTTTCTTCTCACTTTCTTTGC
1 TCTTTTCTCTCATT-TT-TC-CTTTCTTTGC
465351 TCTTTTCTCTCATTTTTCCTTTCTTT
1 TCTTTTCTCTCATTTTTCCTTTCTTT
465377 TTTCAATTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
28 8 0.32
29 2 0.08
30 2 0.08
31 13 0.52
ACGTcount: A:0.04, C:0.30, G:0.02, T:0.65
Consensus pattern (28 bp):
TCTTTTCTCTCATTTTTCCTTTCTTTGC
Found at i:468590 original size:39 final size:39
Alignment explanation
Indices: 468546--468629 Score: 159
Period size: 39 Copynumber: 2.2 Consensus size: 39
468536 TGCATGTACC
468546 TTAAAAACAACTATTAAATATGTATCAAAATAAGACACA
1 TTAAAAACAACTATTAAATATGTATCAAAATAAGACACA
*
468585 TTAAAAACAACTATTAAATATGTATCAAACTAAGACACA
1 TTAAAAACAACTATTAAATATGTATCAAAATAAGACACA
468624 TTAAAA
1 TTAAAA
468630 CCCTATTTAA
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 44 1.00
ACGTcount: A:0.56, C:0.13, G:0.05, T:0.26
Consensus pattern (39 bp):
TTAAAAACAACTATTAAATATGTATCAAAATAAGACACA
Found at i:468814 original size:14 final size:14
Alignment explanation
Indices: 468795--468824 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
468785 AAACTTGTAG
468795 GAGGTTGCAAGGCC
1 GAGGTTGCAAGGCC
468809 GAGGTTGCAAGGCC
1 GAGGTTGCAAGGCC
468823 GA
1 GA
468825 CTTAGTTGAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.23, C:0.20, G:0.43, T:0.13
Consensus pattern (14 bp):
GAGGTTGCAAGGCC
Found at i:471826 original size:10 final size:9
Alignment explanation
Indices: 471809--471834 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
471799 ACCCACAAAA
471809 TATTTTTTT
1 TATTTTTTT
471818 TATTTTTTT
1 TATTTTTTT
471827 TATTTTTT
1 TATTTTTT
471835 ATCTACTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (9 bp):
TATTTTTTT
Found at i:474223 original size:216 final size:216
Alignment explanation
Indices: 473595--476036 Score: 2942
Period size: 216 Copynumber: 11.3 Consensus size: 216
473585 GTATCAGTCA
*
473595 AAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATCCAAAGACCAAAACTTGTTTA
1 AAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAACTTGTTTA
* * * * * ** * * * *
473660 AAAAATGAGAAACTATTTGGACCAAATGATGCAATTTCACGAGCATGGGCTATTCAGAAAATAGA
66 CAAAATGACAAACTATTTAGACCAAATGATGCGATTTCATGAGCATGGATTGTTCAAAAAATTGC
*
473725 TCGAAGGAATGGATTGTCTCT-AATACTTTAAGGAACTGAAGTTATAAAAGAACTCGTAAAAGTT
131 TCGAAGGAATGGATCGTCT-TGAATACTTTAAGGAACTGAAGTTATAAAAGAACTCGTAAAAGTT
* *
473789 TGACAAGTTTGGAAGTTCATCC
195 TGACAAGTTCGGAAGTTCGTCC
* * * * * * *
473811 AAGAACCAAGAGGGAAACAATTCTCATGT-AATAAGATTTTAATTCAAACAACAAAACTTGTATG
1 AAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAACTTGTTTA
* ** *
473875 CAAAATGACAAACTATTTAGACCAAATGATGC-ATCTC-TCGAGCATGGATTGTTTGAAAAATTA
66 CAAAATGACAAACTATTTAGACCAAATGATGCGATTTCAT-GAGCATGGATTGTTCAAAAAATTG
* * * * * * * *
473938 CTTGAGGGAAAGTATCGTCTTGAATACTTTAAGGAACCGAAGTTAGAAAAGAAATTGTAAAAGTT
130 CTCGAAGGAATGGATCGTCTTGAATACTTTAAGGAACTGAAGTTATAAAAGAACTCGTAAAAGTT
474003 TGACAAGTTCGGAAGTTCGTCC
195 TGACAAGTTCGGAAGTTCGTCC
* * * * * *
474025 AAGAAACAAGAGAGAAATAATTCTTAGGTAAATAAGATTTTAATTCAAACACCAAAACTTGTTTA
1 AAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAACTTGTTTA
474090 CAAAATGACAAACTATTTAGACCAAATGATGCGATTTCATGAGCATGGATTGTTCAAAAAATTGC
66 CAAAATGACAAACTATTTAGACCAAATGATGCGATTTCATGAGCATGGATTGTTCAAAAAATTGC
* * * * *
474155 TCAAAGGAATGGAGCATCTTCAATACTTTAAGGAACTGAAGTTATAAAAGAACTCATAAAAGTTT
131 TCGAAGGAATGGATCGTCTTGAATACTTTAAGGAACTGAAGTTATAAAAGAACTCGTAAAAGTTT
*
474220 GACAAGTTCGGAAGTTCGTCA
196 GACAAGTTCGGAAGTTCGTCC
* * *
474241 AAGAACCAAGAGAGAAACAATACTCACATAAATAAGTTTTTAATCCAAAGACCAAAACTTGTTTA
1 AAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAACTTGTTTA
* * * * * *
474306 AAAAATGAGAAACTATTTGGACCAAATGATGCAATTTCACGAGCATGGATTGTTCGAAAAATTGC
66 CAAAATGACAAACTATTTAGACCAAATGATGCGATTTCATGAGCATGGATTGTTCAAAAAATTGC
* *
474371 TCGAAGGAATGGATCATCTTGAATACATTAAGGAACTGAAGTTATAAAAGAACTCGTAAAAGTTT
131 TCGAAGGAATGGATCGTCTTGAATACTTTAAGGAACTGAAGTTATAAAAGAACTCGTAAAAGTTT
*
474436 GACAAGTTCGGAAGTTCGTCA
196 GACAAGTTCGGAAGTTCGTCC
*
474457 AAGAACCAAGAGAGAAACAATTTCTCACGTAAATAAGTTTTTAATCCAAAGACCAAAACTTGTTT
1 AAGAACCAAGAGAGAAACAA-TTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAACTTGTTT
* * * * * * *
474522 AAAAAATGAGAAACTATTTGGACCAAATGATGCGATTTCACGAGCATGAACTATTCAAAAAATTG
65 ACAAAATGACAAACTATTTAGACCAAATGATGCGATTTCATGAGCATGGATTGTTCAAAAAATTG
* * * *
474587 ATCGAGGGAATGGATTGTCTCT-AATACTTTAAGGAA-TAGAAGTTATAAAAGAACTCGTAAAAT
130 CTCGAAGGAATGGATCGTCT-TGAATACTTTAAGGAACT-GAAGTTATAAAAGAACTCGTAAAAG
*
474650 TTTGACAAGTTCAGAAGTTCGTCC
193 TTTGACAAGTTCGGAAGTTCGTCC
* * * * *
474674 AAGAACCAAGGGACAAACATTTTTCACGTAAATAAGTTTTTAATTTAAAGACCAAAACTTGTTTA
1 AAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAACTTGTTTA
* * ** * * **
474739 CAAAATGAC-AACTATTTAGATCAAATGATGTGATTTCCCGAGCAAGGAATGTTTGAAAAATTGC
66 CAAAATGACAAACTATTTAGACCAAATGATGCGATTTCATGAGCATGGATTGTTCAAAAAATTGC
* * * * * *
474803 TCGACGAAAAGTATCGTCTTAAATACTTTAAGGAAAC-GAAGTTAT-AAAGAACTCTTAAAAGTT
131 TCGAAGGAATGGATCGTCTTGAATACTTTAAGG-AACTGAAGTTATAAAAGAACTCGTAAAAGTT
* *
474866 TAACAAGTTCGAAAGTTCGTCC
195 TGACAAGTTCGGAAGTTCGTCC
* *
474888 AAGAACCAAGAGAGAAATAATTCTCACGTAAATAAGTTTTTAATTTAAAGACCAAAACTTGTTTA
1 AAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAACTTGTTTA
* * * * *
474953 CAAAATGAC-AACTATTTAGATCAAATGATGCGATTTC-TCGACCAAGTATTGTTC-GAAAATTG
66 CAAAATGACAAACTATTTAGACCAAATGATGCGATTTCAT-GAGCATGGATTGTTCAAAAAATTG
* * * * * * * *
475015 CTTGAGGGAAAGTATCGTCTTAAATAATTTAAGGAAC-GAAAGTAATAAAAGAAATCGTAAAAG-
130 CTCGAAGGAATGGATCGTCTTGAATACTTTAAGGAACTG-AAGTTATAAAAGAACTCGTAAAAGT
*
475078 --GACAAGTTCGGAAGTTCGTCA
194 TTGACAAGTTCGGAAGTTCGTCC
* *
475099 AAGAACCAAGAGAGAAACAATTCTTACGTAAATAAGTTTTTAATCCAAAGACCAAAACTTGTTTA
1 AAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAACTTGTTTA
* * *
475164 AAAAATGACAAACTATTTAGACCAAATGATGCTATTTCACGAGCATGGAATAT-TTC-AAAAATT
66 CAAAATGACAAACTATTTAGACCAAATGATGCGATTTCATGAGCATGG-AT-TGTTCAAAAAATT
* * * * *
475227 GATCGAAGGAATGGATTGCCTCT-AATACTTTAAGGAACCGATGTTATAAAAGAACTCGTAAAAG
129 GCTCGAAGGAATGGATCGTCT-TGAATACTTTAAGGAACTGAAGTTATAAAAGAACTCGTAAAAG
475291 TTTGACAAGTTCGGAAGTTCGTCC
193 TTTGACAAGTTCGGAAGTTCGTCC
* * * *
475315 AAG-ACATAAGAGAGAAACAATTCTCAAGTAAAAAAGTTTTTAATTTAAAGACCAAAACTTGTTT
1 AAGAAC-CAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAACTTGTTT
* * * *
475379 ACAAAATGAAAAACTATTTAGACCAAAGGAAGTGATTTC-TCGAGCATGGATTGTTCAAAAAATT
65 ACAAAATGACAAACTATTTAGACCAAATGATGCGATTTCAT-GAGCATGGATTGTTCAAAAAATT
* * * * * * *
475443 CCTC-AAGGGAAAGTATCGTCTTGAATACTTTAAGGAATTGAAGTTAGAAAAGAAATTGTAAAAG
129 GCTCGAA-GGAATGGATCGTCTTGAATACTTTAAGGAACTGAAGTTATAAAAGAACTCGTAAAAG
* *
475507 TTTGACAAGTTCAGAAGTTCATCC
193 TTTGACAAGTTCGGAAGTTCGTCC
* * * * * *
475531 AAGAAGCAAGAGAGAAACAATTCTCACGTAAATAAGATTTTAGTTGAAACACCAAAACTTGTCTA
1 AAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAACTTGTTTA
* ** * **
475596 CAAAATGACAAAATATTTAGACCAAATGATATGATTTC-TCGAGCTTGGATTGTTTGAAAAATTG
66 CAAAATGACAAACTATTTAGACCAAATGATGCGATTTCAT-GAGCATGGATTGTTCAAAAAATTG
* *
475660 CTCGAAGGAATGGATCGTCTTGAATGCTTTAAGGAAAC-AAAGTTATAAAAGAACTCGTAAAAGT
130 CTCGAAGGAATGGATCGTCTTGAATACTTTAAGG-AACTGAAGTTATAAAAGAACTCGTAAAAGT
* * *
475724 TTGACAAGTTTGGAAGTTCATCA
194 TTGACAAGTTCGGAAGTTCGTCC
* * * *
475747 AAGAACCCAAGAGAGAAAAAATTCTCACATAAATAAGTTTTTAATCCAAAGACCAAAACTTGATT
1 AAGAA-CCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAACTTGTTT
** * *
475812 ACAAAATGACAAACTATTTAGACCAAATGATGTAATTTAATAAGCATGGAATAT-TTC-AAAAAT
65 ACAAAATGACAAACTATTTAGACCAAATGATGCGATTTCATGAGCATGG-AT-TGTTCAAAAAAT
* * * * * * *
475875 TGATTGAAGGAATGGATTGCCTCT-AATATTTTAAGGAACCGAAGTTATGAAAGAACTCGTAAAA
128 TGCTCGAAGGAATGGATCGTCT-TGAATACTTTAAGGAACTGAAGTTATAAAAGAACTCGTAAAA
** *
475939 GTTTGACAAAATCGAAAGTTCGTCC
192 GTTTGACAAGTTCGGAAGTTCGTCC
* * *
475964 AAGAACTAAGAGAGAAACAATTATCACGTAAATAAGTTTTTAATTTAAAGA-CATAAACTTGTTT
1 AAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCA-AAACTTGTTT
476028 ACAAAATGA
65 ACAAAATGA
476037 TGTGATTTCC
Statistics
Matches: 1924, Mismatches: 263, Indels: 78
0.85 0.12 0.03
Matches are distributed among these distances:
211 87 0.05
212 35 0.02
213 104 0.05
214 278 0.14
215 212 0.11
216 830 0.43
217 370 0.19
218 7 0.00
219 1 0.00
ACGTcount: A:0.42, C:0.14, G:0.17, T:0.27
Consensus pattern (216 bp):
AAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAACTTGTTTA
CAAAATGACAAACTATTTAGACCAAATGATGCGATTTCATGAGCATGGATTGTTCAAAAAATTGC
TCGAAGGAATGGATCGTCTTGAATACTTTAAGGAACTGAAGTTATAAAAGAACTCGTAAAAGTTT
GACAAGTTCGGAAGTTCGTCC
Found at i:474615 original size:433 final size:432
Alignment explanation
Indices: 473595--478576 Score: 5898
Period size: 433 Copynumber: 11.6 Consensus size: 432
473585 GTATCAGTCA
473595 AAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATCCAAAGACCAAAACTTGTTTA
1 AAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATCCAAAGACCAAAACTTGTTTA
* * * * ** *
473660 AAAAATGAGAAACTATTTGGACCAAATGATGCAATTTCACGAGCATGGGCTATTC-AGAAAATAG
66 CAAAATGACAAACTATTTAGACCAAATGATGCGATTTCACGAGCATGGATTATTCGA-AAAATTG
*
473724 ATCGAAGGAATGGATTGTCTCT-AATACTTTAAGGAACTGAAGTTATAAAAGAACTCGTAAAAGT
130 ATCGAAGGAATGGATCGTCT-TGAATACTTTAAGGAACTGAAGTTATAAAAGAACTCGTAAAAGT
* * * * *
473788 TTGACAAGTTTGGAAGTTCATCCAAGAACCAAGAGGGAAACAATTCTCATGT-AATAAGATTTTA
194 TTGACAAGTTCGGAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTA
* * * * * *
473852 ATTCAAACAACAAAACTTGTATGCAAAATGACAAACTATTTAGACCAAATGATGC-ATCTCTCGA
259 ATTCAAAGACCAAAACTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGCGATTTCACGA
* * * * * *
473916 GCATGGATTGTTTGAAAAATTACTTGAGGGAAAGTATCGTCTTGAATACTTTAAGGAACCGAAGT
324 GCATGGATTGTTCGAAAAATTGCTCGAAGGAATGGATCGTCTTGAATACTTTAAGGAACCGAAGT
* * *
473981 TAGAAAAGAAATTGTAAAAGTTTGACAAGTTCGGAAGTTCGTCC
389 TATAAAAGAACTCGTAAAAGTTTGACAAGTTCGGAAGTTCGTCC
* * * * * * *
474025 AAGAAACAAGAGAGAAATAATTCTTAGGTAAATAAGATTTTAATTCAAACACCAAAACTTGTTTA
1 AAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATCCAAAGACCAAAACTTGTTTA
* * * *
474090 CAAAATGACAAACTATTTAGACCAAATGATGCGATTTCATGAGCATGGATTGTTCAAAAAATTGC
66 CAAAATGACAAACTATTTAGACCAAATGATGCGATTTCACGAGCATGGATTATTCGAAAAATTGA
* * * * *
474155 TCAAAGGAATGGAGCATCTTCAATACTTTAAGGAACTGAAGTTATAAAAGAACTCATAAAAGTTT
131 TCGAAGGAATGGATCGTCTTGAATACTTTAAGGAACTGAAGTTATAAAAGAACTCGTAAAAGTTT
* * *
474220 GACAAGTTCGGAAGTTCGTCAAAGAACCAAGAGAGAAACAATACTCACATAAATAAGTTTTTAAT
196 GACAAGTTCGGAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAAT
* * * * *
474285 CCAAAGACCAAAACTTGTTTAAAAAATGAGAAACTATTTGGACCAAATGATGCAATTTCACGAGC
261 TCAAAGACCAAAACTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGCGATTTCACGAGC
* * *
474350 ATGGATTGTTCGAAAAATTGCTCGAAGGAATGGATCATCTTGAATACATTAAGGAACTGAAGTTA
326 ATGGATTGTTCGAAAAATTGCTCGAAGGAATGGATCGTCTTGAATACTTTAAGGAACCGAAGTTA
*
474415 TAAAAGAACTCGTAAAAGTTTGACAAGTTCGGAAGTTCGTCA
391 TAAAAGAACTCGTAAAAGTTTGACAAGTTCGGAAGTTCGTCC
474457 AAGAACCAAGAGAGAAACAATTTCTCACGTAAATAAGTTTTTAATCCAAAGACCAAAACTTGTTT
1 AAGAACCAAGAGAGAAACAA-TTCTCACGTAAATAAGTTTTTAATCCAAAGACCAAAACTTGTTT
* * * * * *
474522 AAAAAATGAGAAACTATTTGGACCAAATGATGCGATTTCACGAGCATGAACTATTCAAAAAATTG
65 ACAAAATGACAAACTATTTAGACCAAATGATGCGATTTCACGAGCATGGATTATTCGAAAAATTG
* * *
474587 ATCGAGGGAATGGATTGTCTCT-AATACTTTAAGGAA-TAGAAGTTATAAAAGAACTCGTAAAAT
130 ATCGAAGGAATGGATCGTCT-TGAATACTTTAAGGAACT-GAAGTTATAAAAGAACTCGTAAAAG
* * * * *
474650 TTTGACAAGTTCAGAAGTTCGTCCAAGAACCAAGGGACAAACATTTTTCACGTAAATAAGTTTTT
193 TTTGACAAGTTCGGAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTT
* * * *
474715 AATTTAAAGACCAAAACTTGTTTACAAAATGAC-AACTATTTAGATCAAATGATGTGATTTCCCG
258 AATTCAAAGACCAAAACTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGCGATTTCACG
* * * * * * * * *
474779 AGCAAGGAATGTTTGAAAAATTGCTCGACGAAAAGTATCGTCTTAAATACTTTAAGGAAACGAAG
323 AGCATGGATTGTTCGAAAAATTGCTCGAAGGAATGGATCGTCTTGAATACTTTAAGGAACCGAAG
* * *
474844 TTAT-AAAGAACTCTTAAAAGTTTAACAAGTTCGAAAGTTCGTCC
388 TTATAAAAGAACTCGTAAAAGTTTGACAAGTTCGGAAGTTCGTCC
* **
474888 AAGAACCAAGAGAGAAATAATTCTCACGTAAATAAGTTTTTAATTTAAAGACCAAAACTTGTTTA
1 AAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATCCAAAGACCAAAACTTGTTTA
* * * * * * *
474953 CAAAATGAC-AACTATTTAGATCAAATGATGCGATTTCTCGACCAAGTATTGTTCG-AAAATTGC
66 CAAAATGACAAACTATTTAGACCAAATGATGCGATTTCACGAGCATGGATTATTCGAAAAATTGA
* * * * * * * *
475016 TTGAGGGAAAGTATCGTCTTAAATAATTTAAGGAAC-GAAAGTAATAAAAGAAATCGTAAAAG--
131 TCGAAGGAATGGATCGTCTTGAATACTTTAAGGAACTG-AAGTTATAAAAGAACTCGTAAAAGTT
* *
475078 -GACAAGTTCGGAAGTTCGTCAAAGAACCAAGAGAGAAACAATTCTTACGTAAATAAGTTTTTAA
195 TGACAAGTTCGGAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAA
* * *
475142 TCCAAAGACCAAAACTTGTTTAAAAAATGACAAACTATTTAGACCAAATGATGCTATTTCACGAG
260 TTCAAAGACCAAAACTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGCGATTTCACGAG
* * * *
475207 CATGGAATAT-TTC-AAAAATTGATCGAAGGAATGGATTGCCTCT-AATACTTTAAGGAACCGAT
325 CATGG-AT-TGTTCGAAAAATTGCTCGAAGGAATGGATCGTCT-TGAATACTTTAAGGAACCGAA
475269 GTTATAAAAGAACTCGTAAAAGTTTGACAAGTTCGGAAGTTCGTCC
387 GTTATAAAAGAACTCGTAAAAGTTTGACAAGTTCGGAAGTTCGTCC
* * * **
475315 AAG-ACATAAGAGAGAAACAATTCTCAAGTAAAAAAGTTTTTAATTTAAAGACCAAAACTTGTTT
1 AAGAAC-CAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATCCAAAGACCAAAACTTGTTT
* * * * * * * *
475379 ACAAAATGAAAAACTATTTAGACCAAAGGAAGTGATTTCTCGAGCATGGATTGTTCAAAAAATTC
65 ACAAAATGACAAACTATTTAGACCAAATGATGCGATTTCACGAGCATGGATTATTCGAAAAATTG
* * * * * * *
475444 CTC-AAGGGAAAGTATCGTCTTGAATACTTTAAGGAATTGAAGTTAGAAAAGAAATTGTAAAAGT
130 ATCGAA-GGAATGGATCGTCTTGAATACTTTAAGGAACTGAAGTTATAAAAGAACTCGTAAAAGT
* * * *
475508 TTGACAAGTTCAGAAGTTCATCCAAGAAGCAAGAGAGAAACAATTCTCACGTAAATAAGATTTTA
194 TTGACAAGTTCGGAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTA
* * * * * ** *
475573 GTTGAAACACCAAAACTTGTCTACAAAATGACAAAATATTTAGACCAAATGATATGATTTCTCGA
259 ATTCAAAGACCAAAACTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGCGATTTCACGA
* * * * *
475638 GCTTGGATTGTTTGAAAAATTGCTCGAAGGAATGGATCGTCTTGAATGCTTTAAGGAAACAAAGT
324 GCATGGATTGTTCGAAAAATTGCTCGAAGGAATGGATCGTCTTGAATACTTTAAGGAACCGAAGT
* * *
475703 TATAAAAGAACTCGTAAAAGTTTGACAAGTTTGGAAGTTCATCA
389 TATAAAAGAACTCGTAAAAGTTTGACAAGTTCGGAAGTTCGTCC
* * *
475747 AAGAACCCAAGAGAGAAAAAATTCTCACATAAATAAGTTTTTAATCCAAAGACCAAAACTTGATT
1 AAGAA-CCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATCCAAAGACCAAAACTTGTTT
** * ** *
475812 ACAAAATGACAAACTATTTAGACCAAATGATGTAATTTAATAAGCATGGAATATTTC-AAAAATT
65 ACAAAATGACAAACTATTTAGACCAAATGATGCGATTTCACGAGCATGGATTA-TTCGAAAAATT
* * * * * *
475876 GATTGAAGGAATGGATTGCCTCT-AATATTTTAAGGAACCGAAGTTATGAAAGAACTCGTAAAAG
129 GATCGAAGGAATGGATCGTCT-TGAATACTTTAAGGAACTGAAGTTATAAAAGAACTCGTAAAAG
** * * *
475940 TTTGACAAAATCGAAAGTTCGTCCAAGAACTAAGAGAGAAACAATTATCACGTAAATAAGTTTTT
193 TTTGACAAGTTCGGAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTT
*
476005 AATTTAAAGA-CATAAACTTG-TT------T-ACAAA--A--T-G-----ATG-T--GATTTC-C
258 AATTCAAAGACCA-AAACTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGCGATTTCAC
* * * * * * * *
476047 TGAGCAAGTATTGTTCGAAAAATTGCTCGAGGGAAAGTATCATCTTGAATACTTTAAAGAATCGA
322 -GAGCATGGATTGTTCGAAAAATTGCTCGAAGGAATGGATCGTCTTGAATACTTTAAGGAACCGA
* * * *
476112 AGTTATAAAATAAATCGTAAAAGTTTGTCAAGTTCGAAAGTTCGTCC
386 AGTTATAAAAGAACTCGTAAAAGTTTGACAAGTTCGGAAGTTCGTCC
* * *
476159 AAGAACCAAGAGAGAAATAATTCTCACGTAAATAA-TATTTTAATTCAAACACCAAAACTTGTTT
1 AAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGT-TTTTAATCCAAAGACCAAAACTTGTTT
* * **
476223 ACAAAATGACAAACTATTTAGAGCAAATGATACGATTTC-CTGAGCATGGATTATTCGGGAAATT
65 ACAAAATGACAAACTATTTAGACCAAATGATGCGATTTCAC-GAGCATGGATTATTCGAAAAATT
* * * *
476287 GCTCAAAGGAATGGATCGTATTGAATACTTTAAGGAACTGAAATTATAAAAGAACTCGTAAAAGT
129 GATCGAAGGAATGGATCGTCTTGAATACTTTAAGGAACTGAAGTTATAAAAGAACTCGTAAAAGT
* * * *
476352 TTGACAAGTTCGGAAGTTCATCAAAGAACCAAGAGAGAAATAATTCTCACGTAAATAAGTTTCTA
194 TTGACAAGTTCGGAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTA
* *
476417 ATCCAAAGAGCAAAACTTGTTTA-AAAATGAGC-AACTATTT-GAACCAAATGATGCGATTTCAC
259 ATTCAAAGACCAAAACTTGTTTACAAAATGA-CAAACTATTTAG-ACCAAATGATGCGATTTCAC
* * * * * *
476479 GAGCATGGACTATTCAAAAAATTGATCGAAGGAATGGATTGTCTCT-AATACTTTAAGGAACCAA
322 GAGCATGGATTGTTCGAAAAATTGCTCGAAGGAATGGATCGTCT-TGAATACTTTAAGGAACCGA
* * * * *
476543 AGTTATAAAATAACTCTTAAAAGTTTGACAAGTTTGGAAGTTCATCT
386 AGTTATAAAAGAACTCGTAAAAGTTTGACAAGTTCGGAAGTTCGTCC
* * * *
476590 AAGAACCAAGAGAGAAATAATTCTCACGTAAATAAGGTTTTAATCCAAAGACCAAAATTTTTTTA
1 AAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATCCAAAGACCAAAACTTGTTTA
* * *
476655 -AAAAGTGAGAAACTATTTAGACCAAATGATGCGATTTTACGAGCATGGAATATTCGAAAAATTG
66 CAAAA-TGACAAACTATTTAGACCAAATGATGCGATTTCACGAGCATGGATTATTCGAAAAATTG
* * *
476719 ATCAAAGGAATGGATCGTCTTGAATACTTTAATGAACTGAAGTTATAAAAGAACTTGTAAAAGTT
130 ATCGAAGGAATGGATCGTCTTGAATACTTTAAGGAACTGAAGTTATAAAAGAACTCGTAAAAGTT
* * * * * *
476784 TGACAAGATCGAAACTTCGTCTAAGAACCAAGAGAGAAATAATTCTTACGTAAATAAGTTTTTAA
195 TGACAAGTTCGGAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAA
* * * ** ** *
476849 TCCAAAGACAAAAACTTTTTTTTTTAAAAAAACAAACTATTTTGACCAAATGATGCGATTTCACG
260 TTCAAAGACCAAAAC--TTGTTTACAAAATGACAAACTATTTAGACCAAATGATGCGATTTCACG
* * * * * *
476914 AGCATGGAATAT-TTC-AAAATTTG-ACAAATGGAATGGATTGTCCCT-AGTACTTTAAGGAACC
323 AGCATGG-AT-TGTTCGAAAAATTGCTCGAA-GGAATGGATCGT-CTTGAATACTTTAAGGAACC
* * * *
476975 GAAGTTATAAAAGAACTTGTAAAAGTTTGAAAAGATT-GGAAGTTCATAC
384 GAAGTTATAAAAGAACTCGTAAAAGTTTGACAAG-TTCGGAAGTTCGTCC
* * ** *
477024 AAGAATCAAGAGAGAAACAATTCTCACGTAAATATGTTTTTAATTTAAAGAACAAAACTTGTTTA
1 AAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATCCAAAGACCAAAACTTGTTTA
** * * * * * *
477089 CAAAATGA-AAACTATTTAGATTAAATGATACGATTTCCCGAGCAAGGATTTTTCGGAAAATTGC
66 CAAAATGACAAACTATTTAGACCAAATGATGCGATTTCACGAGCATGGATTATTCGAAAAATTGA
* * * * * * * *
477153 TCGAAGGAAAGTATCATTTTGAATACTTCAAGGAACCGAAGTTGTAAAAGAACTTGTAAAAGTTT
131 TCGAAGGAATGGATCGTCTTGAATACTTTAAGGAACTGAAGTTATAAAAGAACTCGTAAAAGTTT
* * * * *
477218 GACAAGTTTGAAAGTTAGTCTAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGATTTTAAT
196 GACAAGTTCGGAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAAT
* * *
477283 TCAAACACCAAAACTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGTGATTTCTCGAGC
261 TCAAAGACCAAAACTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGCGATTTCACGAGC
* * * * * * * * *
477348 ATGGATTGTTCAAAAAATCGTTTGAGGGAAAGTATCATCTTGAATACTTTAAGAAACCGAAGTTA
326 ATGGATTGTTCGAAAAATTGCTCGAAGGAATGGATCGTCTTGAATACTTTAAGGAACCGAAGTTA
* * * * *
477413 GAAAAGAAATCGTAAAAGTTTGACAAGTTCGAAAGTTTGTCA
391 TAAAAGAACTCGTAAAAGTTTGACAAGTTCGGAAGTTCGTCC
* * *
477455 AAGAACCAAGAGAGAAACAATTCTCATGTAAATAAGTTTATAATCTAAAGACCAAAACTTGTTTA
1 AAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATCCAAAGACCAAAACTTGTTTA
* * * * * * * *
477520 AAAAATGAAAAACTATTTAGAACAAATGATACAATTTCACAAGCATGGAATATTTCG-AAAATTT
66 CAAAATGACAAACTATTTAGACCAAATGATGCGATTTCACGAGCATGGATTA-TTCGAAAAATTG
* *
477584 ATCGAAGGAATGGATTGCCTCT-AATACTTTAAGGAACTGAAGTTATAAAAGAACTCGTAAAAGT
130 ATCGAAGGAATGGATCGTCT-TGAATACTTTAAGGAACTGAAGTTATAAAAGAACTCGTAAAAGT
* * * *
477648 TTGAAAAGTTTGGAAGTTTGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTCA
194 TTGACAAGTTCGGAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTA
* * * * *
477713 GTTTAAAGACCAAAACCTGTTTACAAAATGAC-AACTATTTAGATCAAATGATGCGATTTCCCGA
259 ATTCAAAGACCAAAACTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGCGATTTCACGA
* * * * *
477777 GCAAGTATTGTT-TAAAAATTTGCTCG-AGGAAAAGTATCGTCTTGAATACTTTAAGGAACCGAA
324 GCATGGATTGTTCGAAAAA-TTGCTCGAAGG-AATGGATCGTCTTGAATACTTTAAGGAACCGAA
* *
477840 GTTATAAAAGAAATCGTAAAAGTTTGACAAGTTCGGAAGTTTGTCC
387 GTTATAAAAGAACTCGTAAAAGTTTGACAAGTTCGGAAGTTCGTCC
* * * * *
477886 AAGAACCAAGGGAGAAACAATTCTCACGTAAATAAGATTTTAATTCAAACACCAAAACTTATTTA
1 AAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATCCAAAGACCAAAACTTGTTTA
* * * * *
477951 CAAAATGACAAACTATTTAGACCAAATGATGCGATTTCCCAAGCATGGATTGTTCGAGAAATTGC
66 CAAAATGACAAACTATTTAGACCAAATGATGCGATTTCACGAGCATGGATTATTCGAAAAATTGA
* *
478016 TCGAAGGAATGGATCATATTGAATACTTTAAGGAACTGAAGTTATAAAAGAACTCGTAAAAGTTT
131 TCGAAGGAATGGATCGTCTTGAATACTTTAAGGAACTGAAGTTATAAAAGAACTCGTAAAAGTTT
** * *
478081 GACAAGTTCGGAAGTTAATCAAAGAACCAAGAGAGAAACAATTCTCACACGTAAATAGGTTTTTA
196 GACAAGTTCGGAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCT--CACGTAAATAAGTTTTTA
* * * * * * *
478146 ATCCAAAGACCAAAACTTGTTTAAAAAATAAGAAACTGTTTGGA-CAAATGATGCAATTTCACGA
259 ATTCAAAGACCAAAACTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGCGATTTCACGA
* * * * * *
478210 GCATGGACTATTCAAAAAATTGATCGAAGGAATGGATTGTCTCT-AATACTTCAAGGAACCGAAG
324 GCATGGATTGTTCGAAAAATTGCTCGAAGGAATGGATCGTCT-TGAATACTTTAAGGAACCGAAG
*
478274 TTATAAAAGAACTCGTAAAAGTTTGACAAGTTCGGAAGTTTGTCC
388 TTATAAAAGAACTCGTAAAAGTTTGACAAGTTCGGAAGTTCGTCC
* *
478319 AAGAACCAAGAGAGAAATAATTCTCATGTAAATAAGTTTTTAATCCAAAGACCAAAACTTGTTTA
1 AAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATCCAAAGACCAAAACTTGTTTA
* * * * * *
478384 AAAAATGAGAAACTATTTTGACCAAATGATGCGATTTCACGAGCATGAAATATTTGAAAAATTGA
66 CAAAATGACAAACTATTTAGACCAAATGATGCGATTTCACGAGCATGGATTATTCGAAAAATTGA
* * * *
478449 TCAAAGGAATGAATCGTCTTGAATACTTTAATGAACTGAAGTTATAAAAGAACTCGCAAAAGTTT
131 TCGAAGGAATGGATCGTCTTGAATACTTTAAGGAACTGAAGTTATAAAAGAACTCGTAAAAGTTT
* * * *
478514 GACAAGATCAGAAGTTCGTCCAAGAACCAAGAGAGAAATAATTCTCACGTAAATAAGATTTTA
196 GACAAGTTCGGAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTA
478577 TGATGTGAGC
Statistics
Matches: 3880, Mismatches: 579, Indels: 185
0.84 0.12 0.04
Matches are distributed among these distances:
410 5 0.00
411 225 0.06
412 107 0.03
414 1 0.00
415 3 0.00
417 1 0.00
418 3 0.00
419 1 0.00
420 2 0.00
421 1 0.00
422 2 0.00
423 1 0.00
425 90 0.02
426 79 0.02
427 109 0.03
428 99 0.03
429 97 0.03
430 289 0.07
431 969 0.25
432 593 0.15
433 990 0.26
434 200 0.05
435 12 0.00
436 1 0.00
ACGTcount: A:0.42, C:0.14, G:0.17, T:0.28
Consensus pattern (432 bp):
AAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATCCAAAGACCAAAACTTGTTTA
CAAAATGACAAACTATTTAGACCAAATGATGCGATTTCACGAGCATGGATTATTCGAAAAATTGA
TCGAAGGAATGGATCGTCTTGAATACTTTAAGGAACTGAAGTTATAAAAGAACTCGTAAAAGTTT
GACAAGTTCGGAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAAT
TCAAAGACCAAAACTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGCGATTTCACGAGC
ATGGATTGTTCGAAAAATTGCTCGAAGGAATGGATCGTCTTGAATACTTTAAGGAACCGAAGTTA
TAAAAGAACTCGTAAAAGTTTGACAAGTTCGGAAGTTCGTCC
Found at i:475886 original size:649 final size:648
Alignment explanation
Indices: 473591--478576 Score: 6039
Period size: 649 Copynumber: 7.7 Consensus size: 648
473581 ACTCGTATCA
473591 GTCAAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATCCAAAGACCAAAACTTG
1 GTCAAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATCCAAAGACCAAAACTTG
* * **
473656 TTTAAAAAATGAGAAACTATTTGGACCAAATGATGCAATTTCACGAGCATGGGCTATTC-AGAAA
66 TTTAAAAAATGACAAACTATTTAGACCAAATGATGCAATTTCACGAGCATGGATTATTCGA-AAA
* * *
473720 ATAGATCGAAGGAATGGATTGTCTCTAATACTTTAAGGAACTGAAGTTATAAAAGAACTCGTAAA
130 ATTGCTCGAAGGAATGGATCGTCT-TAATACTTTAAGGAACTGAAGTTATAAAAGAACTCGTAAA
* * * * *
473785 AGTTTGACAAGTTTGGAAGTTCATCCAAGAACCAAGAGGGAAACAATTCTCATGT-AATAAGATT
194 AGTTTGACAAGTTCGGAAGTTCATCAAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTT
* * * * * * *
473849 TTAATTCAAACAACAAAACTTGTATGCAAAATGACAAACTATTTAGACCAAATGATGC-ATCTCT
259 TTAATCCAAAGACCAAAACTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGCGATTTCA
* * * * * * * *
473913 CGAGCATGGATTGTTTGAAAAATT-ACTTGAGGGAAAGTATCGTCT-TGAATACTTTAAGGAACC
324 CGAGCATGGAATATTTCAAAAATTGA-TCGAAGGAATGGATTGTCTCTGAATACTTTAAGGAACC
* * * *
473976 GAAGTTAGAAAAGAAATTGTAAAAGTTTGACAAGTTCGGAAGTTCGTCCAAGAAACAAGAGAGAA
388 GAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGTTCGGAAGTTCGTCCAAGAACCAAGAGAGAA
* * * *
474041 ATAATTCTTAGGTAAATAAGATTTTAATTCAAACACCAAAACTTGTTTACAAAATGACAAACTAT
453 ACAATTCTCACGTAAATAAGATTTTAATTCAAAGACCAAAACTTGTTTACAAAATGACAAACTAT
* * * * * *
474106 TTAGACCAAATGATGCGATTTCAT-GAGCATGGATTGTTCAAAAAATTGCTCAAAGGAATGGAGC
518 TTAGACCAAATGATGTGATTTC-TCGAGCATGGATTGTTCGAAAAATTGCTCAAGGGAAAGTATC
* * *
474170 ATCTTCAATACTTTAAGGAACTGAAGTTATAAAAGAACTCATAAAAGTTTGACAAGTTCGGAAGT
582 ATCTTGAATACTTTAAGGAACTGAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGTTCGAAAGT
474235 TC
647 TC
* *
474237 GTCAAAGAACCAAGAGAGAAACAATACTCACATAAATAAGTTTTTAATCCAAAGACCAAAACTTG
1 GTCAAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATCCAAAGACCAAAACTTG
* * *
474302 TTTAAAAAATGAGAAACTATTTGGACCAAATGATGCAATTTCACGAGCATGGATTGTTCGAAAAA
66 TTTAAAAAATGACAAACTATTTAGACCAAATGATGCAATTTCACGAGCATGGATTATTCGAAAAA
* *
474367 TTGCTCGAAGGAATGGATCATCTTGAATACATTAAGGAACTGAAGTTATAAAAGAACTCGTAAAA
131 TTGCTCGAAGGAATGGATCGTCTT-AATACTTTAAGGAACTGAAGTTATAAAAGAACTCGTAAAA
*
474432 GTTTGACAAGTTCGGAAGTTCGTCAAAGAACCAAGAGAGAAACAATTTCTCACGTAAATAAGTTT
195 GTTTGACAAGTTCGGAAGTTCATCAAAGAACCAAGAGAGAAACAA-TTCTCACGTAAATAAGTTT
* * *
474497 TTAATCCAAAGACCAAAACTTGTTTAAAAAATGAGAAACTATTTGGACCAAATGATGCGATTTCA
259 TTAATCCAAAGACCAAAACTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGCGATTTCA
* *
474562 CGAGCAT-GAACTA-TTCAAAAAATTGATCGAGGGAATGGATTGTCTCT-AATACTTTAAGGAAT
324 CGAGCATGGAA-TATTTC-AAAAATTGATCGAAGGAATGGATTGTCTCTGAATACTTTAAGGAAC
* * * * *
474624 AGAAGTTATAAAAGAACTCGTAAAATTTTGACAAGTTCAGAAGTTCGTCCAAGAACCAAGGGACA
387 CGAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGTTCGGAAGTTCGTCCAAGAACCAAGAGAGA
* * * *
474689 AACATTTTTCACGTAAATAAGTTTTTAATTTAAAGACCAAAACTTGTTTACAAAATGAC-AACTA
452 AACAATTCTCACGTAAATAAGATTTTAATTCAAAGACCAAAACTTGTTTACAAAATGACAAACTA
* * * * * * * *
474753 TTTAGATCAAATGATGTGATTTCCCGAGCAAGGAATGTTTGAAAAATTGCTCGACGAAAAGTATC
517 TTTAGACCAAATGATGTGATTTCTCGAGCATGGATTGTTCGAAAAATTGCTCAAGGGAAAGTATC
* * * *
474818 GTCTTAAATACTTTAAGGAAAC-GAAGTTAT-AAAGAACTCTTAAAAGTTTAACAAGTTCGAAAG
582 ATCTTGAATACTTTAAGG-AACTGAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGTTCGAAAG
474881 TTC
646 TTC
* * **
474884 GTCCAAGAACCAAGAGAGAAATAATTCTCACGTAAATAAGTTTTTAATTTAAAGACCAAAACTTG
1 GTCAAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATCCAAAGACCAAAACTTG
* * * * * * * *
474949 TTTACAAAATGAC-AACTATTTAGATCAAATGATGCGATTTCTCGACCAAGTATTGTTCG-AAAA
66 TTTAAAAAATGACAAACTATTTAGACCAAATGATGCAATTTCACGAGCATGGATTATTCGAAAAA
* * * * * * *
475012 TTGCTTGAGGGAAAGTATCGTCTTAAATAATTTAAGGAAC-GAAAGTAATAAAAGAAATCGTAAA
131 TTGCTCGAAGGAATGGATCGTCTT-AATACTTTAAGGAACTG-AAGTTATAAAAGAACTCGTAAA
* *
475076 AG---GACAAGTTCGGAAGTTCGTCAAAGAACCAAGAGAGAAACAATTCTTACGTAAATAAGTTT
194 AGTTTGACAAGTTCGGAAGTTCATCAAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTT
* *
475138 TTAATCCAAAGACCAAAACTTGTTTAAAAAATGACAAACTATTTAGACCAAATGATGCTATTTCA
259 TTAATCCAAAGACCAAAACTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGCGATTTCA
*
475203 CGAGCATGGAATATTTCAAAAATTGATCGAAGGAATGGATTGCCTCT-AATACTTTAAGGAACCG
324 CGAGCATGGAATATTTCAAAAATTGATCGAAGGAATGGATTGTCTCTGAATACTTTAAGGAACCG
* *
475267 ATGTTATAAAAGAACTCGTAAAAGTTTGACAAGTTCGGAAGTTCGTCCAAG-ACATAAGAGAGAA
389 AAGTTATAAAAGAACTCGTAAAAGTTTGACAAGTTCGGAAGTTCGTCCAAGAAC-CAAGAGAGAA
* * * * *
475331 ACAATTCTCAAGTAAAAAAGTTTTTAATTTAAAGACCAAAACTTGTTTACAAAATGAAAAACTAT
453 ACAATTCTCACGTAAATAAGATTTTAATTCAAAGACCAAAACTTGTTTACAAAATGACAAACTAT
* * * * *
475396 TTAGACCAAAGGAAGTGATTTCTCGAGCATGGATTGTTCAAAAAATTCCTCAAGGGAAAGTATCG
518 TTAGACCAAATGATGTGATTTCTCGAGCATGGATTGTTCGAAAAATTGCTCAAGGGAAAGTATCA
* * * *
475461 TCTTGAATACTTTAAGGAATTGAAGTTAGAAAAGAAATTGTAAAAGTTTGACAAGTTC-AGAAGT
583 TCTTGAATACTTTAAGGAACTGAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGTTCGA-AAGT
475525 TC
647 TC
* * * * * ** *
475527 ATCCAAGAAGCAAGAGAGAAACAATTCTCACGTAAATAAGATTTTAGTTGAAACACCAAAACTTG
1 GTCAAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATCCAAAGACCAAAACTTG
* * * *** * * * *
475592 TCTACAAAATGACAAAATATTTAGACCAAATGATATGATTTCTCGAGCTTGGATTGTTTGAAAAA
66 TTTAAAAAATGACAAACTATTTAGACCAAATGATGCAATTTCACGAGCATGGATTATTCGAAAAA
* *
475657 TTGCTCGAAGGAATGGATCGTCTTGAATGCTTTAAGGAAAC-AAAGTTATAAAAGAACTCGTAAA
131 TTGCTCGAAGGAATGGATCGTCTT-AATACTTTAAGG-AACTGAAGTTATAAAAGAACTCGTAAA
* * *
475721 AGTTTGACAAGTTTGGAAGTTCATCAAAGAACCCAAGAGAGAAAAAATTCTCACATAAATAAGTT
194 AGTTTGACAAGTTCGGAAGTTCATCAAAGAA-CCAAGAGAGAAACAATTCTCACGTAAATAAGTT
* ** *
475786 TTTAATCCAAAGACCAAAACTTGATTACAAAATGACAAACTATTTAGACCAAATGATGTAATTTA
258 TTTAATCCAAAGACCAAAACTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGCGATTTC
** * * *
475851 ATAAGCATGGAATATTTCAAAAATTGATTGAAGGAATGGATTGCCTCT-AATATTTTAAGGAACC
323 ACGAGCATGGAATATTTCAAAAATTGATCGAAGGAATGGATTGTCTCTGAATACTTTAAGGAACC
* ** * *
475915 GAAGTTATGAAAGAACTCGTAAAAGTTTGACAAAATCGAAAGTTCGTCCAAGAACTAAGAGAGAA
388 GAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGTTCGGAAGTTCGTCCAAGAACCAAGAGAGAA
* * *
475980 ACAATTATCACGTAAATAAGTTTTTAATTTAAAGA-CATAAACTTGTTTACAAAATG-------A
453 ACAATTCTCACGTAAATAAGATTTTAATTCAAAGACCA-AAACTTGTTTACAAAATGACAAACTA
* * * *
476037 --T-G------TGA--T--TTCCT-GAGCAAGTATTGTTCGAAAAATTGCTCGAGGGAAAGTATC
517 TTTAGACCAAATGATGTGATTTCTCGAGCATGGATTGTTCGAAAAATTGCTCAAGGGAAAGTATC
* * * *
476088 ATCTTGAATACTTTAAAGAA-TCGAAGTTATAAAATAAATCGTAAAAGTTTGTCAAGTTCGAAAG
582 ATCTTGAATACTTTAAGGAACT-GAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGTTCGAAAG
476152 TTC
646 TTC
* * * *
476155 GTCCAAGAACCAAGAGAGAAATAATTCTCACGTAAATAA-TATTTTAATTCAAACACCAAAACTT
1 GTCAAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGT-TTTTAATCCAAAGACCAAAACTT
* * * * **
476219 GTTTACAAAATGACAAACTATTTAGAGCAAATGATACGATTTC-CTGAGCATGGATTATTCGGGA
65 GTTTAAAAAATGACAAACTATTTAGACCAAATGATGCAATTTCAC-GAGCATGGATTATTCGAAA
* * *
476283 AATTGCTCAAAGGAATGGATCGTATTGAATACTTTAAGGAACTGAAATTATAAAAGAACTCGTAA
129 AATTGCTCGAAGGAATGGATCGTCTT-AATACTTTAAGGAACTGAAGTTATAAAAGAACTCGTAA
*
476348 AAGTTTGACAAGTTCGGAAGTTCATCAAAGAACCAAGAGAGAAATAATTCTCACGTAAATAAGTT
193 AAGTTTGACAAGTTCGGAAGTTCATCAAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTT
* *
476413 TCTAATCCAAAGAGCAAAACTTGTTTA-AAAATGAGC-AACTATTT-GAACCAAATGATGCGATT
258 TTTAATCCAAAGACCAAAACTTGTTTACAAAATGA-CAAACTATTTAG-ACCAAATGATGCGATT
*
476475 TCACGAGCATGGACTA-TTCAAAAAATTGATCGAAGGAATGGATTGTCTCT-AATACTTTAAGGA
321 TCACGAGCATGGAATATTTC-AAAAATTGATCGAAGGAATGGATTGTCTCTGAATACTTTAAGGA
* * * * * *
476538 ACCAAAGTTATAAAATAACTCTTAAAAGTTTGACAAGTTTGGAAGTTCATCTAAGAACCAAGAGA
385 ACCGAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGTTCGGAAGTTCGTCCAAGAACCAAGAGA
* * * * * *
476603 GAAATAATTCTCACGTAAATAAGGTTTTAATCCAAAGACCAAAATTTTTTTA-AAAAGTGAGAAA
450 GAAACAATTCTCACGTAAATAAGATTTTAATTCAAAGACCAAAACTTGTTTACAAAA-TGACAAA
* * * * * *
476667 CTATTTAGACCAAATGATGCGATTT-TACGAGCATGGAATATTCGAAAAATTGATCAAAGGAATG
514 CTATTTAGACCAAATGATGTGATTTCT-CGAGCATGGATTGTTCGAAAAATTGCTCAAGGGAAAG
* * * * *
476731 GATCGTCTTGAATACTTTAATGAACTGAAGTTATAAAAGAACTTGTAAAAGTTTGACAAGATCGA
578 TATCATCTTGAATACTTTAAGGAACTGAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGTTCGA
*
476796 AACTTC
643 AAGTTC
* * * *
476802 GTCTAAGAACCAAGAGAGAAATAATTCTTACGTAAATAAGTTTTTAATCCAAAGACAAAAACTTT
1 GTCAAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATCCAAAGACCAAAAC---
* * * *
476867 TTTTTTTAAAAAA--ACAAACTATTTTGACCAAATGATGCGATTTCACGAGCATGGAATATTTC-
63 -TTGTTTAAAAAATGACAAACTATTTAGACCAAATGATGCAATTTCACGAGCATGGATTA-TTCG
* * * * * * * *
476929 AAAATTTG-ACAAATGGAATGGATTGTCCCTAGTACTTTAAGGAACCGAAGTTATAAAAGAACTT
126 AAAAATTGCTCGAA-GGAATGGATCGT-CTTAATACTTTAAGGAACTGAAGTTATAAAAGAACTC
* *
476993 GTAAAAGTTTGAAAAGATT-GGAAGTTCAT-ACAAGAATCAAGAGAGAAACAATTCTCACGTAAA
189 GTAAAAGTTTGACAAG-TTCGGAAGTTCATCA-AAGAACCAAGAGAGAAACAATTCTCACGTAAA
* ** * ** *
477056 TATGTTTTTAATTTAAAGAACAAAACTTGTTTACAAAATGA-AAACTATTTAGATTAAATGATAC
252 TAAGTTTTTAATCCAAAGACCAAAACTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGC
* * * * * * * ** * *
477120 GATTTCCCGAGCAAGG-ATTTTTCGGAAAATTGCTCGAAGGAAAGTATCAT-TTTGAATACTTCA
317 GATTTCACGAGCATGGAATATTTC-AAAAATTGATCGAAGGAATGGATTGTCTCTGAATACTTTA
* * * * * *
477183 AGGAACCGAAGTTGTAAAAGAACTTGTAAAAGTTTGACAAGTTTGAAAGTTAGTCTAAGAACCAA
381 AGGAACCGAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGTTCGGAAGTTCGTCCAAGAACCAA
*
477248 GAGAGAAACAATTCTCACGTAAATAAGATTTTAATTCAAACACCAAAACTTGTTTACAAAATGAC
446 GAGAGAAACAATTCTCACGTAAATAAGATTTTAATTCAAAGACCAAAACTTGTTTACAAAATGAC
* * * **
477313 AAACTATTTAGACCAAATGATGTGATTTCTCGAGCATGGATTGTTCAAAAAATCGTTTGAGGGAA
511 AAACTATTTAGACCAAATGATGTGATTTCTCGAGCATGGATTGTTCGAAAAATTGCTCAAGGGAA
* * * *
477378 AGTATCATCTTGAATACTTTAAGAAACCGAAGTTAGAAAAGAAATCGTAAAAGTTTGACAAGTTC
576 AGTATCATCTTGAATACTTTAAGGAACTGAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGTTC
*
477443 GAAAGTTT
641 GAAAGTTC
* * *
477451 GTCAAAGAACCAAGAGAGAAACAATTCTCATGTAAATAAGTTTATAATCTAAAGACCAAAACTTG
1 GTCAAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATCCAAAGACCAAAACTTG
* * * * *
477516 TTTAAAAAATGAAAAACTATTTAGAACAAATGATACAATTTCACAAGCATGGAATATTTCG-AAA
66 TTTAAAAAATGACAAACTATTTAGACCAAATGATGCAATTTCACGAGCATGGATTA-TTCGAAAA
** * *
477580 ATTTATCGAAGGAATGGATTGCCTCTAATACTTTAAGGAACTGAAGTTATAAAAGAACTCGTAAA
130 ATTGCTCGAAGGAATGGATCGTCT-TAATACTTTAAGGAACTGAAGTTATAAAAGAACTCGTAAA
* * ** *
477645 AGTTTGAAAAGTTTGGAAGTTTGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTT
194 AGTTTGACAAGTTCGGAAGTTCATCAAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTT
* * ** * * *
477710 TCAGTTTAAAGACCAAAACCTGTTTACAAAATGAC-AACTATTTAGATCAAATGATGCGATTTCC
259 TTAATCCAAAGACCAAAACTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGCGATTTCA
* * * * * * * *
477774 CGAGCAAGTATTGTTT-AAAAATTTGCTCG-AGGAAAAGTATCGTCT-TGAATACTTTAAGGAAC
324 CGAGCATGGAATATTTCAAAAA-TTGATCGAAGG-AATGGATTGTCTCTGAATACTTTAAGGAAC
* * *
477836 CGAAGTTATAAAAGAAATCGTAAAAGTTTGACAAGTTCGGAAGTTTGTCCAAGAACCAAGGGAGA
387 CGAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGTTCGGAAGTTCGTCCAAGAACCAAGAGAGA
* *
477901 AACAATTCTCACGTAAATAAGATTTTAATTCAAACACCAAAACTTATTTACAAAATGACAAACTA
452 AACAATTCTCACGTAAATAAGATTTTAATTCAAAGACCAAAACTTGTTTACAAAATGACAAACTA
* * * * * *
477966 TTTAGACCAAATGATGCGATTTCCCAAGCATGGATTGTTCGAGAAATTGCTCGAA-GGAATGGAT
517 TTTAGACCAAATGATGTGATTTCTCGAGCATGGATTGTTCGAAAAATTGCTC-AAGGGAAAGTAT
* *
478030 CATATTGAATACTTTAAGGAACTGAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGTTCGGAAG
581 CATCTTGAATACTTTAAGGAACTGAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGTTCGAAAG
*
478095 TTA
646 TTC
* *
478098 ATCAAAGAACCAAGAGAGAAACAATTCTCACACGTAAATAGGTTTTTAATCCAAAGACCAAAACT
1 GTCAAAGAACCAAGAGAGAAACAATTCT--CACGTAAATAAGTTTTTAATCCAAAGACCAAAACT
* * * * * *
478163 TGTTTAAAAAATAAGAAACTGTTTGGA-CAAATGATGCAATTTCACGAGCATGGACTATTCAAAA
64 TGTTTAAAAAATGACAAACTATTTAGACCAAATGATGCAATTTCACGAGCATGGATTATTCGAAA
* * * *
478227 AATTGATCGAAGGAATGGATTGTCTCTAATACTTCAAGGAACCGAAGTTATAAAAGAACTCGTAA
129 AATTGCTCGAAGGAATGGATCGTCT-TAATACTTTAAGGAACTGAAGTTATAAAAGAACTCGTAA
** * * *
478292 AAGTTTGACAAGTTCGGAAGTTTGTCCAAGAACCAAGAGAGAAATAATTCTCATGTAAATAAGTT
193 AAGTTTGACAAGTTCGGAAGTTCATCAAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTT
* * *
478357 TTTAATCCAAAGACCAAAACTTGTTTAAAAAATGAGAAACTATTTTGACCAAATGATGCGATTTC
258 TTTAATCCAAAGACCAAAACTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGCGATTTC
* * * * * * *
478422 ACGAGCATGAAATATTTGAAAAATTGATCAAAGGAATGAATCGTCT-TGAATACTTTAATGAACT
323 ACGAGCATGGAATATTTCAAAAATTGATCGAAGGAATGGATTGTCTCTGAATACTTTAAGGAACC
* * *
478486 GAAGTTATAAAAGAACTCGCAAAAGTTTGACAAGATCAGAAGTTCGTCCAAGAACCAAGAGAGAA
388 GAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGTTCGGAAGTTCGTCCAAGAACCAAGAGAGAA
*
478551 ATAATTCTCACGTAAATAAGATTTTA
453 ACAATTCTCACGTAAATAAGATTTTA
478577 TGATGTGAGC
Statistics
Matches: 3779, Mismatches: 463, Indels: 193
0.85 0.10 0.04
Matches are distributed among these distances:
625 8 0.00
626 179 0.05
627 63 0.02
628 289 0.08
629 5 0.00
631 1 0.00
633 3 0.00
635 1 0.00
636 1 0.00
639 1 0.00
640 3 0.00
641 242 0.06
642 134 0.04
643 100 0.03
644 38 0.01
645 127 0.03
646 276 0.07
647 767 0.20
648 367 0.10
649 1132 0.30
650 32 0.01
651 10 0.00
ACGTcount: A:0.42, C:0.14, G:0.17, T:0.28
Consensus pattern (648 bp):
GTCAAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATCCAAAGACCAAAACTTG
TTTAAAAAATGACAAACTATTTAGACCAAATGATGCAATTTCACGAGCATGGATTATTCGAAAAA
TTGCTCGAAGGAATGGATCGTCTTAATACTTTAAGGAACTGAAGTTATAAAAGAACTCGTAAAAG
TTTGACAAGTTCGGAAGTTCATCAAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTT
AATCCAAAGACCAAAACTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGCGATTTCACG
AGCATGGAATATTTCAAAAATTGATCGAAGGAATGGATTGTCTCTGAATACTTTAAGGAACCGAA
GTTATAAAAGAACTCGTAAAAGTTTGACAAGTTCGGAAGTTCGTCCAAGAACCAAGAGAGAAACA
ATTCTCACGTAAATAAGATTTTAATTCAAAGACCAAAACTTGTTTACAAAATGACAAACTATTTA
GACCAAATGATGTGATTTCTCGAGCATGGATTGTTCGAAAAATTGCTCAAGGGAAAGTATCATCT
TGAATACTTTAAGGAACTGAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGTTCGAAAGTTC
Found at i:476837 original size:431 final size:429
Alignment explanation
Indices: 476094--478576 Score: 2979
Period size: 431 Copynumber: 5.8 Consensus size: 429
476084 TATCATCTTG
* * * * *
476094 AATACTTTAAAGAATCGAAGTTATAAAATAAATCGTAAAAGTTTGTCAAGTTCGAAAGTTCGTCC
1 AATACTTTAAGGAACCGAAGTTATAAAAGAAATCGTAAAAGTTTGACAAGTTCGGAAGTTCGTCC
* * * *
476159 AAGAACCAAGAGAGAAATAATTCTCACGTAAATAATATTTTAATTCAAACACCAAAACTTGTTTA
66 AAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGATTTTAATCCAAAGACCAAAACTTGTTTA
* * **
476224 CAAAATGACAAACTATTTAGAGCAAATGATACGATTTC-CTGAGCATGGATTATTCGGGAAATTG
131 CAAAATGACAAACTATTTAGACCAAATGATACGATTTCAC-GAGCATGGAATATTCGAAAAATTG
* * *
476288 CTCAAAGGAATGGATCGTATTGAATACTTTAAGGAACTGAAATTATAAAAGAACTCGTAAAAGTT
195 ATCAAAGGAATGGATCGTCTTGAATACTTTAAGGAACTGAAGTTATAAAAGAACTCGTAAAAGTT
* * *
476353 TGACAAGTTCGGAAGTTCATCAAAGAACCAAGAGAGAAATAATTCTCACGTAAATAAGTTTCTAA
260 TGACAAGTTCGAAAGTTCGTCAAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTT-TAA
*
476418 TCCAAAGAGCAAAACTTGTTTAAAAATGAGCAACTATTTGAACCAAATGATGCGATTTCACGAGC
324 TCCAAAGACCAAAACTTGTTTAAAAATGA-CAACTATTTGAACCAAATGATGCGATTTCACGAGC
476483 ATGGACTATTCAAAAAATTGATCGAAGGAATGGATTGTCTCT
388 ATGGACTATTCAAAAAATTGATCGAAGGAATGGATTGTCTCT
* * * * * * *
476525 AATACTTTAAGGAACCAAAGTTATAAAATAACTCTTAAAAGTTTGACAAGTTTGGAAGTTCATCT
1 AATACTTTAAGGAACCGAAGTTATAAAAGAAATCGTAAAAGTTTGACAAGTTCGGAAGTTCGTCC
* * * *
476590 AAGAACCAAGAGAGAAATAATTCTCACGTAAATAAGGTTTTAATCCAAAGACCAAAATTTTTTTA
66 AAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGATTTTAATCCAAAGACCAAAACTTGTTTA
* * *
476655 -AAAAGTGAGAAACTATTTAGACCAAATGATGCGATTTTACGAGCATGGAATATTCGAAAAATTG
131 CAAAA-TGACAAACTATTTAGACCAAATGATACGATTTCACGAGCATGGAATATTCGAAAAATTG
* *
476719 ATCAAAGGAATGGATCGTCTTGAATACTTTAATGAACTGAAGTTATAAAAGAACTTGTAAAAGTT
195 ATCAAAGGAATGGATCGTCTTGAATACTTTAAGGAACTGAAGTTATAAAAGAACTCGTAAAAGTT
* * * * *
476784 TGACAAGATCGAAACTTCGTCTAAGAACCAAGAGAGAAATAATTCTTACGTAAATAAGTTTTTAA
260 TGACAAGTTCGAAAGTTCGTCAAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAG-TTTTAA
* * *
476849 TCCAAAGACAAAAACTTTTTTTTTTAAAAA-AACAAACTATTTTG-ACCAAATGATGCGATTTCA
324 TCCAAAGACCAAAAC----TTGTTTAAAAATGAC-AACTA-TTTGAACCAAATGATGCGATTTCA
* * * *
476912 CGAGCATGGAATATTTC-AAAATTTGA-CAAATGGAATGGATTGTCCCT
383 CGAGCATGGACTA-TTCAAAAAATTGATCGAA-GGAATGGATTGTCTCT
* * * * * *
476959 AGTACTTTAAGGAACCGAAGTTATAAAAGAACTTGTAAAAGTTTGAAAAGATT-GGAAGTTCATA
1 AATACTTTAAGGAACCGAAGTTATAAAAGAAATCGTAAAAGTTTGACAAG-TTCGGAAGTTCGTC
* * * ** *
477023 CAAGAATCAAGAGAGAAACAATTCTCACGTAAATATGTTTTTAATTTAAAGAACAAAACTTGTTT
65 CAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGATTTTAATCCAAAGACCAAAACTTGTTT
** * * * * *
477088 ACAAAATGA-AAACTATTTAGATTAAATGATACGATTTCCCGAGCAAGGATTTTTCGGAAAATTG
130 ACAAAATGACAAACTATTTAGACCAAATGATACGATTTCACGAGCATGGAATATTCGAAAAATTG
* * * * * * * * * *
477152 CTCGAAGGAAAGTATCATTTTGAATACTTCAAGGAACCGAAGTTGTAAAAGAACTTGTAAAAGTT
195 ATCAAAGGAATGGATCGTCTTGAATACTTTAAGGAACTGAAGTTATAAAAGAACTCGTAAAAGTT
* * *
477217 TGACAAGTTTGAAAGTTAGTCTAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGATTTTAA
260 TGACAAGTTCGAAAGTTCGTCAAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAG-TTTTAA
* * * *
477282 TTCAAACACCAAAACTTGTTTACAAAATGACAAACTATTT-AGACCAAATGATGTGATTTCTCGA
324 TCCAAAGACCAAAACTTGTTTA-AAAATGAC-AACTATTTGA-ACCAAATGATGCGATTTCACGA
* * * * * * * * **
477346 GCATGGATTGTTCAAAAAATCGTTTGAGGGAAAGTATCATCT-T
386 GCATGGACTATTCAAAAAATTGATCGAAGGAATGGATTGTCTCT
* * * *
477389 GAATACTTTAAGAAACCGAAGTTAGAAAAGAAATCGTAAAAGTTTGACAAGTTCGAAAGTTTGTC
1 -AATACTTTAAGGAACCGAAGTTATAAAAGAAATCGTAAAAGTTTGACAAGTTCGGAAGTTCGTC
* * *
477454 AAAGAACCAAGAGAGAAACAATTCTCATGTAAATAAG-TTTATAATCTAAAGACCAAAACTTGTT
65 CAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGATTT-TAATCCAAAGACCAAAACTTGTT
* * * * *
477518 TAAAAAATGAAAAACTATTTAGAACAAATGATACAATTTCACAAGCATGGAATATTTCG-AAAAT
129 TACAAAATGACAAACTATTTAGACCAAATGATACGATTTCACGAGCATGGAATA-TTCGAAAAAT
* * * *
477582 TTATCGAAGGAATGGATTGCCTCT-AATACTTTAAGGAACTGAAGTTATAAAAGAACTCGTAAAA
193 TGATCAAAGGAATGGATCGTCT-TGAATACTTTAAGGAACTGAAGTTATAAAAGAACTCGTAAAA
* * * * *
477646 GTTTGAAAAGTTTGGAAGTTTGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTT
257 GTTTGACAAGTTCGAAAGTTCGTCAAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTT
* ** * * *
477711 CAGTTTAAAGACCAAAACCTGTTTACAAAATGACAACTATTT-AGATCAAATGATGCGATTTCCC
322 -AATCCAAAGACCAAAACTTGTTTA-AAAATGACAACTATTTGA-ACCAAATGATGCGATTTCAC
* * * * * * * * * *
477775 GAGCAAGTATTGTTTAAAAATTTGCTCG-AGGAAAAGTATCGTCT-T
384 GAGCATGGACTATTCAAAAAATTGATCGAAGG-AATGGATTGTCTCT
*
477820 GAATACTTTAAGGAACCGAAGTTATAAAAGAAATCGTAAAAGTTTGACAAGTTCGGAAGTTTGTC
1 -AATACTTTAAGGAACCGAAGTTATAAAAGAAATCGTAAAAGTTTGACAAGTTCGGAAGTTCGTC
* * * *
477885 CAAGAACCAAGGGAGAAACAATTCTCACGTAAATAAGATTTTAATTCAAACACCAAAACTTATTT
65 CAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGATTTTAATCCAAAGACCAAAACTTGTTT
* * * * * *
477950 ACAAAATGACAAACTATTTAGACCAAATGATGCGATTTCCCAAGCATGGATTGTTCGAGAAATTG
130 ACAAAATGACAAACTATTTAGACCAAATGATACGATTTCACGAGCATGGAATATTCGAAAAATTG
* * * *
478015 CTCGAAGGAATGGATCATATTGAATACTTTAAGGAACTGAAGTTATAAAAGAACTCGTAAAAGTT
195 ATCAAAGGAATGGATCGTCTTGAATACTTTAAGGAACTGAAGTTATAAAAGAACTCGTAAAAGTT
* ** *
478080 TGACAAGTTCGGAAGTTAATCAAAGAACCAAGAGAGAAACAATTCTCACACGTAAATAGGTTTTT
260 TGACAAGTTCGAAAGTTCGTCAAAGAACCAAGAGAGAAACAATTCT--CACGTAAATAAG-TTTT
* * *
478145 AATCCAAAGACCAAAACTTGTTTAAAAAATAAGA-AACTGTTTGGA-CAAATGATGCAATTTCAC
322 AATCCAAAGACCAAAACTTGTTT-AAAAAT--GACAACTATTTGAACCAAATGATGCGATTTCAC
478208 GAGCATGGACTATTCAAAAAATTGATCGAAGGAATGGATTGTCTCT
384 GAGCATGGACTATTCAAAAAATTGATCGAAGGAATGGATTGTCTCT
* * *
478254 AATACTTCAAGGAACCGAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGTTCGGAAGTTTGTCC
1 AATACTTTAAGGAACCGAAGTTATAAAAGAAATCGTAAAAGTTTGACAAGTTCGGAAGTTCGTCC
* * *
478319 AAGAACCAAGAGAGAAATAATTCTCATGTAAATAAGTTTTTAATCCAAAGACCAAAACTTGTTTA
66 AAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGATTTTAATCCAAAGACCAAAACTTGTTTA
* * * * * *
478384 AAAAATGAGAAACTATTTTGACCAAATGATGCGATTTCACGAGCATGAAATATTTGAAAAATTGA
131 CAAAATGACAAACTATTTAGACCAAATGATACGATTTCACGAGCATGGAATATTCGAAAAATTGA
* * *
478449 TCAAAGGAATGAATCGTCTTGAATACTTTAATGAACTGAAGTTATAAAAGAACTCGCAAAAGTTT
196 TCAAAGGAATGGATCGTCTTGAATACTTTAAGGAACTGAAGTTATAAAAGAACTCGTAAAAGTTT
* * *
478514 GACAAGATC-AGAAGTTCGTCCAAGAACCAAGAGAGAAATAATTCTCACGTAAATAAGATTTTA
261 GACAAGTTCGA-AAGTTCGTCAAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAG-TTTTA
478577 TGATGTGAGC
Statistics
Matches: 1767, Mismatches: 245, Indels: 80
0.84 0.12 0.04
Matches are distributed among these distances:
429 6 0.00
430 27 0.02
431 802 0.45
432 184 0.10
433 533 0.30
434 190 0.11
435 25 0.01
ACGTcount: A:0.42, C:0.13, G:0.17, T:0.28
Consensus pattern (429 bp):
AATACTTTAAGGAACCGAAGTTATAAAAGAAATCGTAAAAGTTTGACAAGTTCGGAAGTTCGTCC
AAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGATTTTAATCCAAAGACCAAAACTTGTTTA
CAAAATGACAAACTATTTAGACCAAATGATACGATTTCACGAGCATGGAATATTCGAAAAATTGA
TCAAAGGAATGGATCGTCTTGAATACTTTAAGGAACTGAAGTTATAAAAGAACTCGTAAAAGTTT
GACAAGTTCGAAAGTTCGTCAAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTAATC
CAAAGACCAAAACTTGTTTAAAAATGACAACTATTTGAACCAAATGATGCGATTTCACGAGCATG
GACTATTCAAAAAATTGATCGAAGGAATGGATTGTCTCT
Found at i:478570 original size:216 final size:216
Alignment explanation
Indices: 476060--478576 Score: 2977
Period size: 216 Copynumber: 11.7 Consensus size: 216
476050 GCAAGTATTG
* * * * * * * *
476060 TTCGAAAAATTGCTCGAGGGAAAGTATCATCTTGAATACTTTAAAGAATCGAAGTTATAAAATAA
1 TTCGAAAAATTGATCGAAGGAATGGATCGTCTTGAATACTTTAAGGAACCGAAGTTATAAAAGAA
* * * *
476125 ATCGTAAAAGTTTGTCAAGTTCGAAAGTTCGTCCAAGAACCAAGAGAGAAATAATTCTCACGTAA
66 CTCGTAAAAGTTTGACAAGTTCGGAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAA
* * * *
476190 ATAA-TATTTTAATTCAAACACCAAAACTTGTTTACAAAATGACAAACTATTTAGAGCAAATGAT
131 ATAAGT-TTTTAATCCAAAGACCAAAACTTGTTTAAAAAATGACAAACTATTTAGACCAAATGAT
* *
476254 ACGATTTC-CTGAGCATGGATTA
195 GCGATTTCAC-GAGCATGGAATA
** * * * * *
476276 TTCGGGAAATTGCTCAAAGGAATGGATCGTATTGAATACTTTAAGGAACTGAAATTATAAAAGAA
1 TTCGAAAAATTGATCGAAGGAATGGATCGTCTTGAATACTTTAAGGAACCGAAGTTATAAAAGAA
* * *
476341 CTCGTAAAAGTTTGACAAGTTCGGAAGTTCATCAAAGAACCAAGAGAGAAATAATTCTCACGTAA
66 CTCGTAAAAGTTTGACAAGTTCGGAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAA
* *
476406 ATAAGTTTCTAATCCAAAGAGCAAAACTTGTTT-AAAAATGAGC-AACTATTT-GAACCAAATGA
131 ATAAGTTTTTAATCCAAAGACCAAAACTTGTTTAAAAAATGA-CAAACTATTTAG-ACCAAATGA
*
476468 TGCGATTTCACGAGCATGGACTA
194 TGCGATTTCACGAGCATGGAATA
* * * *
476491 TTCAAAAAATTGATCGAAGGAATGGATTGTCTCT-AATACTTTAAGGAACCAAAGTTATAAAATA
1 TTCGAAAAATTGATCGAAGGAATGGATCGTCT-TGAATACTTTAAGGAACCGAAGTTATAAAAGA
* * * * *
476555 ACTCTTAAAAGTTTGACAAGTTTGGAAGTTCATCTAAGAACCAAGAGAGAAATAATTCTCACGTA
65 ACTCGTAAAAGTTTGACAAGTTCGGAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTA
* * * * *
476620 AATAAGGTTTTAATCCAAAGACCAAAATTTTTTTAAAAAGTGAGAAACTATTTAGACCAAATGAT
130 AATAAGTTTTTAATCCAAAGACCAAAACTTGTTTAAAAAATGACAAACTATTTAGACCAAATGAT
*
476685 GCGATTTTACGAGCATGGAATA
195 GCGATTTCACGAGCATGGAATA
* * *
476707 TTCGAAAAATTGATCAAAGGAATGGATCGTCTTGAATACTTTAATGAACTGAAGTTATAAAAGAA
1 TTCGAAAAATTGATCGAAGGAATGGATCGTCTTGAATACTTTAAGGAACCGAAGTTATAAAAGAA
* * * * * * *
476772 CTTGTAAAAGTTTGACAAGATCGAAACTTCGTCTAAGAACCAAGAGAGAAATAATTCTTACGTAA
66 CTCGTAAAAGTTTGACAAGTTCGGAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAA
* * *
476837 ATAAGTTTTTAATCCAAAGACAAAAACTTTTTTTTTTAAAAAA--ACAAACTATTTTGACCAAAT
131 ATAAGTTTTTAATCCAAAGACCAAAAC----TTGTTTAAAAAATGACAAACTATTTAGACCAAAT
476900 GATGCGATTTCACGAGCATGGAATA
192 GATGCGATTTCACGAGCATGGAATA
* * * * *
476925 TTTC-AAAATTTGA-CAAATGGAATGGATTGTCCCT-AGTACTTTAAGGAACCGAAGTTATAAAA
1 -TTCGAAAAATTGATCGAA-GGAATGGATCGT-CTTGAATACTTTAAGGAACCGAAGTTATAAAA
* * * * *
476987 GAACTTGTAAAAGTTTGAAAAGATT-GGAAGTTCATACAAGAATCAAGAGAGAAACAATTCTCAC
63 GAACTCGTAAAAGTTTGACAAG-TTCGGAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCAC
* ** * * **
477051 GTAAATATGTTTTTAATTTAAAGAACAAAACTTGTTTACAAAATGA-AAACTATTTAGATTAAAT
127 GTAAATAAGTTTTTAATCCAAAGACCAAAACTTGTTTAAAAAATGACAAACTATTTAGACCAAAT
* * * * *
477115 GATACGATTTCCCGAGCAAGGATTT
192 GATGCGATTTCACGAGCATGGAATA
* * * * * * * *
477140 TTCGGAAAATTGCTCGAAGGAAAGTATCATTTTGAATACTTCAAGGAACCGAAGTTGTAAAAGAA
1 TTCGAAAAATTGATCGAAGGAATGGATCGTCTTGAATACTTTAAGGAACCGAAGTTATAAAAGAA
* * * * *
477205 CTTGTAAAAGTTTGACAAGTTTGAAAGTTAGTCTAAGAACCAAGAGAGAAACAATTCTCACGTAA
66 CTCGTAAAAGTTTGACAAGTTCGGAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAA
* * * *
477270 ATAAGATTTTAATTCAAACACCAAAACTTGTTTACAAAATGACAAACTATTTAGACCAAATGATG
131 ATAAGTTTTTAATCCAAAGACCAAAACTTGTTTAAAAAATGACAAACTATTTAGACCAAATGATG
* * * *
477335 TGATTTCTCGAGCATGGATTG
196 CGATTTCACGAGCATGGAATA
* * * * * * * * * *
477356 TTCAAAAAATCGTTTGAGGGAAAGTATCATCTTGAATACTTTAAGAAACCGAAGTTAGAAAAGAA
1 TTCGAAAAATTGATCGAAGGAATGGATCGTCTTGAATACTTTAAGGAACCGAAGTTATAAAAGAA
* * * * *
477421 ATCGTAAAAGTTTGACAAGTTCGAAAGTTTGTCAAAGAACCAAGAGAGAAACAATTCTCATGTAA
66 CTCGTAAAAGTTTGACAAGTTCGGAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAA
* * * * *
477486 ATAAGTTTATAATCTAAAGACCAAAACTTGTTTAAAAAATGAAAAACTATTTAGAACAAATGATA
131 ATAAGTTTTTAATCCAAAGACCAAAACTTGTTTAAAAAATGACAAACTATTTAGACCAAATGATG
* *
477551 CAATTTCACAAGCATGGAATA
196 CGATTTCACGAGCATGGAATA
* * * *
477572 TTTCG-AAAATTTATCGAAGGAATGGATTGCCTCT-AATACTTTAAGGAACTGAAGTTATAAAAG
1 -TTCGAAAAATTGATCGAAGGAATGGATCGTCT-TGAATACTTTAAGGAACCGAAGTTATAAAAG
* * *
477635 AACTCGTAAAAGTTTGAAAAGTTTGGAAGTTTGTCCAAGAACCAAGAGAGAAACAATTCTCACGT
64 AACTCGTAAAAGTTTGACAAGTTCGGAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGT
* * ** * * *
477700 AAATAAGTTTTCAGTTTAAAGACCAAAACCTGTTTACAAAATGAC-AACTATTTAGATCAAATGA
129 AAATAAGTTTTTAATCCAAAGACCAAAACTTGTTTAAAAAATGACAAACTATTTAGACCAAATGA
* * * * *
477764 TGCGATTTCCCGAGCAAGTATTG
194 TGCGATTTCACGAGCATGGAATA
* * * *
477787 TT-TAAAAATTTGCTCG-AGGAAAAGTATCGTCTTGAATACTTTAAGGAACCGAAGTTATAAAAG
1 TTCGAAAAA-TTGATCGAAGG-AATGGATCGTCTTGAATACTTTAAGGAACCGAAGTTATAAAAG
* * *
477850 AAATCGTAAAAGTTTGACAAGTTCGGAAGTTTGTCCAAGAACCAAGGGAGAAACAATTCTCACGT
64 AACTCGTAAAAGTTTGACAAGTTCGGAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGT
* * * * *
477915 AAATAAGATTTTAATTCAAACACCAAAACTTATTTACAAAATGACAAACTATTTAGACCAAATGA
129 AAATAAGTTTTTAATCCAAAGACCAAAACTTGTTTAAAAAATGACAAACTATTTAGACCAAATGA
* * * *
477980 TGCGATTTCCCAAGCATGGATTG
194 TGCGATTTCACGAGCATGGAATA
* * * * *
478003 TTCGAGAAATTGCTCGAAGGAATGGATCATATTGAATACTTTAAGGAACTGAAGTTATAAAAGAA
1 TTCGAAAAATTGATCGAAGGAATGGATCGTCTTGAATACTTTAAGGAACCGAAGTTATAAAAGAA
** *
478068 CTCGTAAAAGTTTGACAAGTTCGGAAGTTAATCAAAGAACCAAGAGAGAAACAATTCTCACACGT
66 CTCGTAAAAGTTTGACAAGTTCGGAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCT--CACGT
* * * * *
478133 AAATAGGTTTTTAATCCAAAGACCAAAACTTGTTTAAAAAATAAGAAACTGTTTGGA-CAAATGA
129 AAATAAGTTTTTAATCCAAAGACCAAAACTTGTTTAAAAAATGACAAACTATTTAGACCAAATGA
* *
478197 TGCAATTTCACGAGCATGGACTA
194 TGCGATTTCACGAGCATGGAATA
* * *
478220 TTCAAAAAATTGATCGAAGGAATGGATTGTCTCT-AATACTTCAAGGAACCGAAGTTATAAAAGA
1 TTCGAAAAATTGATCGAAGGAATGGATCGTCT-TGAATACTTTAAGGAACCGAAGTTATAAAAGA
* * *
478284 ACTCGTAAAAGTTTGACAAGTTCGGAAGTTTGTCCAAGAACCAAGAGAGAAATAATTCTCATGTA
65 ACTCGTAAAAGTTTGACAAGTTCGGAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTA
* *
478349 AATAAGTTTTTAATCCAAAGACCAAAACTTGTTTAAAAAATGAGAAACTATTTTGACCAAATGAT
130 AATAAGTTTTTAATCCAAAGACCAAAACTTGTTTAAAAAATGACAAACTATTTAGACCAAATGAT
*
478414 GCGATTTCACGAGCATGAAATA
195 GCGATTTCACGAGCATGGAATA
* * * * *
478436 TTTGAAAAATTGATCAAAGGAATGAATCGTCTTGAATACTTTAATGAACTGAAGTTATAAAAGAA
1 TTCGAAAAATTGATCGAAGGAATGGATCGTCTTGAATACTTTAAGGAACCGAAGTTATAAAAGAA
* * * *
478501 CTCGCAAAAGTTTGACAAGATCAGAAGTTCGTCCAAGAACCAAGAGAGAAATAATTCTCACGTAA
66 CTCGTAAAAGTTTGACAAGTTCGGAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAA
*
478566 ATAAGATTTTA
131 ATAAGTTTTTA
478577 TGATGTGAGC
Statistics
Matches: 1977, Mismatches: 286, Indels: 76
0.85 0.12 0.03
Matches are distributed among these distances:
214 27 0.01
215 585 0.30
216 980 0.50
217 151 0.08
218 217 0.11
219 6 0.00
220 11 0.01
ACGTcount: A:0.42, C:0.14, G:0.17, T:0.28
Consensus pattern (216 bp):
TTCGAAAAATTGATCGAAGGAATGGATCGTCTTGAATACTTTAAGGAACCGAAGTTATAAAAGAA
CTCGTAAAAGTTTGACAAGTTCGGAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAA
ATAAGTTTTTAATCCAAAGACCAAAACTTGTTTAAAAAATGACAAACTATTTAGACCAAATGATG
CGATTTCACGAGCATGGAATA
Found at i:479792 original size:50 final size:52
Alignment explanation
Indices: 479706--479825 Score: 147
Period size: 50 Copynumber: 2.4 Consensus size: 52
479696 TGCATGACTT
*
479706 GATTTAATGATGCAAACTTTAACTAACATGGGAGTTACATAATGCATGATAG
1 GATTTAATGATGCAAACTTTAACTAACATGGAAGTTACATAATGCATGATAG
* * * * *
479758 GATTT-ATGATGCATA-TTTAACTAACATGTAAGTTACTTAATGCATGTTAT
1 GATTTAATGATGCAAACTTTAACTAACATGGAAGTTACATAATGCATGATAG
* *
479808 TATTT-ATTATGCAAACTT
1 GATTTAATGATGCAAACTT
479826 AAATGATCAT
Statistics
Matches: 58, Mismatches: 9, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
50 42 0.72
51 11 0.19
52 5 0.09
ACGTcount: A:0.36, C:0.11, G:0.15, T:0.38
Consensus pattern (52 bp):
GATTTAATGATGCAAACTTTAACTAACATGGAAGTTACATAATGCATGATAG
Found at i:480069 original size:17 final size:17
Alignment explanation
Indices: 480038--480070 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
480028 CAAACACTTA
480038 TTAAACTAAAATAAAAC
1 TTAAACTAAAATAAAAC
480055 TTAAA-TAAAATTAAAA
1 TTAAACTAAAA-TAAAA
480071 ATTCCTTAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.67, C:0.06, G:0.00, T:0.27
Consensus pattern (17 bp):
TTAAACTAAAATAAAAC
Found at i:481108 original size:216 final size:215
Alignment explanation
Indices: 480571--481811 Score: 1423
Period size: 216 Copynumber: 5.8 Consensus size: 215
480561 GTTTGACAAG
* * *
480571 GAACCAAGAGTGAAAAAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAATTGTTTACA
1 GAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAACTTGTTTACA
* * * *
480636 AAATGACAAACTATTTAGACCAAATGATGCGACTTCCCAAGCATGGAATGTTCGAAAAATTGTTG
66 AAATGACAAACTATTTAGACCAAATGATGCGATTTCCCGAGCATGGAATGTTCGAAAAATTGCTC
* * * * * *
480701 GAAGGAATGGATCATCTTGAATACTGTAACGAACTGAAG-TACAAAAGAACTCGTAAAAGTTTGA
131 AAAGGAATGGATCTTCTTGAATACTTTAAGGAACCGAAGTTA-TAAAGAACTCGTAAAAGTTTGA
* * *
480765 CAACTTCAAAAGTTCGTCCAA
195 CAAGTTCGAAAGTTCGTCAAA
* * ** * *
480786 GGACC-A-AGAG--TCAATTCTCACGTAAATAAAATTTTAATTCAAACACTAAAACTTGTTTACA
1 GAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAACTTGTTTACA
* * * *
480847 AAATGAAAAACTATTTAGACCTAATGATGTGATTTCCTGAGCATGGAATGTTC-AGAAAATTGCT
66 AAATGACAAACTATTTAGACCAAATGATGCGATTTCCCGAGCATGGAATGTTCGA-AAAATTGCT
* *
480911 CAAAGGTATGGATCTTCTTGAATACTTTAAGGAACCAAAGTTATAGAAGAACTCGTAAAAGTTTG
130 CAAAGGAATGGATCTTCTTGAATACTTTAAGGAACCGAAGTTATA-AAGAACTCGTAAAAGTTTG
*
480976 ACAAGTTCGATAGTTCGTCAAA
194 ACAAGTTCGAAAGTTCGTCAAA
* * *
480998 GAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAGTTCAAAGACCTAAAGTTGTTTACA
1 GAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAACTTGTTTACA
* * * *
481063 AAATGACAAACTATTCAGACCAAATAATGC-AGCTTCCCAAGCATGGAATGTTCGAAAAATTGCT
66 AAATGACAAACTATTTAGACCAAATGATGCGA-TTTCCCGAGCATGGAATGTTCGAAAAATTGCT
** * **
481127 GGAAGGAATGAATCAACTTGAATACTTTAAGGAACCGAAGTTATAAGAGAACTCGTAAAAGTTTG
130 CAAAGGAATGGATCTTCTTGAATACTTTAAGGAACCGAAGTTATAA-AGAACTCGTAAAAGTTTG
* *
481192 ---A--T---AAGTTTGTCCAA
194 ACAAGTTCGAAAGTTCGTCAAA
* * * * *
481206 CAACCAAGAGAGAAACAATTCTCACATAAATAAGATTTTAATTCAAAAACCAAAACTTGTTTATA
1 GAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAACTTGTTTACA
* * *
481271 AAATGACAAACTATTTAGACAAAATGATGTGATTTCCCGAGCATGGAATGTTCGACAAATTGCTG
66 AAATGACAAACTATTTAGACCAAATGATGCGATTTCCCGAGCATGGAATGTTCGAAAAATTGCT-
* ** * *
481336 GAAA-GAATGGATAGTCTTGAATACTTTAAGGAACCAAAGTTAT-AAGAACTCGTAAAAGTTTGT
130 CAAAGGAATGGATCTTCTTGAATACTTTAAGGAACCGAAGTTATAAAGAACTCGTAAAAGTTTGA
* *
481399 CAAGATT-GGAAGTTCGTCCAA
195 CAAG-TTCGAAAGTTCGTCAAA
* * * * *
481420 GAACCAAGAGAGAAATAATT-TCAAGTAAATAAGTTTTTAATCCAAAGACCAAAACTTGCTTAAA
1 GAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAACTTGTTTACA
* * * * * *
481484 AAATGAGAAACTTTTTAGACCAAATGATGCGATTTCACGAGCATGAAATATTCGAAAAATTGATC
66 AAATGACAAACTATTTAGACCAAATGATGCGATTTCCCGAGCATGGAATGTTCGAAAAATTGCTC
* * * *
481549 AAAGGAATGGAT-TCTCTCT-AATAATTTAAGGAACCGAAGTTACAAAAAAACTTGTAAAAGTTT
131 AAAGGAATGGATCT-TCT-TGAATACTTTAAGGAACCGAAGTTA-TAAAGAACTCGTAAAAGTTT
481612 GACAAGTTCGAAAGTTCGTCAAA
193 GACAAGTTCGAAAGTTCGTCAAA
* * * * *
481635 GAACTAACAGAGAAACAATTCTCACGTAAATAAGTTTTTAATCCAAAGACGAAAACTTGTTTAAA
1 GAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAACTTGTTTACA
* ** * * *
481700 AAATGACAAACTATTTAGACCAAATGATGCGATTTCACGAGCATTAAATATT-TAGAAAATTGAT
66 AAATGACAAACTATTTAGACCAAATGATGCGATTTCCCGAGCATGGAATGTTCGA-AAAATTGCT
* *
481764 CGAAGAAATGGAT-TGTCTCT-AATACTTTAAGGAACCGAAGTTATAAAG
130 CAAAGGAATGGATCT-TCT-TGAATACTTTAAGGAACCGAAGTTATAAAG
481812 GTGAGTGCGA
Statistics
Matches: 876, Mismatches: 122, Indels: 56
0.83 0.12 0.05
Matches are distributed among these distances:
206 18 0.02
207 1 0.00
208 155 0.18
209 5 0.01
210 1 0.00
211 133 0.15
212 47 0.05
213 129 0.15
214 37 0.04
215 60 0.07
216 289 0.33
217 1 0.00
ACGTcount: A:0.42, C:0.15, G:0.17, T:0.27
Consensus pattern (215 bp):
GAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAACTTGTTTACA
AAATGACAAACTATTTAGACCAAATGATGCGATTTCCCGAGCATGGAATGTTCGAAAAATTGCTC
AAAGGAATGGATCTTCTTGAATACTTTAAGGAACCGAAGTTATAAAGAACTCGTAAAAGTTTGAC
AAGTTCGAAAGTTCGTCAAA
Found at i:481790 original size:637 final size:617
Alignment explanation
Indices: 480204--481810 Score: 1835
Period size: 637 Copynumber: 2.6 Consensus size: 617
480194 TGCTCACATC
** * *
480204 ATTTTAATTCAAAGACCAAATGTTGTTTACAAAATGACAAACAATTTAGACCAAATGATGCGATT
1 ATTTTAATTCAAAGACCAAAACTTGTTTACAAAATGAAAAACTATTTAGACCAAATGATGCGATT
** *
480269 TCCCGAGCATGGAATGTTCAGAAAATTGCTTGAAGGATTGGATCGTCT-TAAATAATTTAAGGAA
66 T-CCGAGCATGGAATGTTCAGAAAATTGCTCAAAGGAATGGATC-TCTCTAAATAATTTAAGGAA
* * * * *
480333 CAGAAGTT--ATAAACTCATAAAAGTTTGACAAGTTCGGAAGTTCGTCCAAGAACT-AAGA-AAG
129 CCGAAGTTAAAAAAACTCGTAAAAGTTTGACAAGTTCGAAAGTTCGTCAAAGAACTAAAGAGAA-
* * *
480394 AGAATTCTCACGTAAATAAGTTTTTAGTTCAAACATCAAAACTTGTTTACAAAATGACAAACTGT
193 ACAATTCTCACGTAAATAAGTTTTTAGTTCAAAGA-CAAAACTTGTTTACAAAATGACAAACTAT
* * * ** ** * * *
480459 TTAGACTAAATTATGTGATTTCTTGATAATGGAATGTTCAAAAAATTGCTTGAAGGAATGGA-T-
257 TTAGACCAAATAATGCGATTTCACGAGCATGGAAT-TTTAGAAAATTGCTCGAAGGAATGGATTC
* *
480522 TT--T-CTTTAAGGAACTGAAGTTATAAAAGAACTCATAAAAGTTTGACAAGGAACCAAGAGTGA
321 TTAATACTTTAAGGAACCGAAGTTATAAAAGAACTCATAAAAGTTTGACAAGGAACCAAGAGAGA
* * *
480584 AAAAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAATTGTTTACAAAATGACAAACTA
386 AAAAATTCTCACATAAATAAGATTTTAATTCAAAAACCAAAAATTGTTTACAAAATGACAAACTA
* * *
480649 TTTAGACCAAATGATGCGACTTCCCAAGCATGGAATGTTCGAAAAATTGTTGGAAGGAATGGATC
451 TTTAGACAAAATGATGCGACTTCCCAAGCATGGAATGTTCGAAAAATTGCTGGAAAGAATGGATC
** *
480714 ATCTTGAATACTGTAACGAACTGAAGTACAAAAGAACTCGTAAAAGTTTGACAACTTCAAAAGTT
516 ATCTTGAATACTGTAACGAACCAAAGTACAAAAGAACTCGTAAAAGTTTGACAAATTCAAAAGTT
* ** *
480779 CGTCCAAGGACCAAGAGTCAATTCTCACGTAAATAAA
581 CGTCCAAGAACCAAGAGGAAATTCTCAAGTAAATAAA
* * * *
480816 ATTTTAATTCAAACACTAAAACTTGTTTACAAAATGAAAAACTATTTAGACCTAATGATGTGATT
1 ATTTTAATTCAAAGACCAAAACTTGTTTACAAAATGAAAAACTATTTAGACCAAATGATGCGATT
* * *
480881 TCCTGAGCATGGAATGTTCAGAAAATTGCTCAAAGGTATGGATCT-TCTTGAATACTTTAAGGAA
66 TCC-GAGCATGGAATGTTCAGAAAATTGCTCAAAGGAATGGATCTCTC-TAAATAATTTAAGGAA
* * * *
480945 CCAAAGTTATAGAAGAACTCGTAAAAGTTTGACAAGTTCGATAGTTCGTCAAAGAACCAAGAGAG
129 CCGAAGTTA-A-AAAAACTCGTAAAAGTTTGACAAGTTCGAAAGTTCGTCAAAGAACTAA-AGAG
* *
481010 AAACAATTCTCACGTAAATAAGTTTTTAGTTCAAAGACCTAAAGTTGTTTACAAAATGACAAACT
191 AAACAATTCTCACGTAAATAAGTTTTTAGTTCAAAGA-CAAAACTTGTTTACAAAATGACAAACT
* * * * * * * *
481075 ATTCAGACCAAATAATGC-AGCTTCCCAAGCATGGAATGTTCGAAAAATTGCTGGAAGGAATGAA
255 ATTTAGACCAAATAATGCGA-TTTCACGAGCATGGAATTTTAG-AAAATTGCTCGAAGGAATGGA
* * * *
481139 TCAACTTGAATACTTTAAGGAACCGAAGTTATAAGAGAACTCGTAAAAGTTTGATAAGTTTGTCC
318 T--TCTT-AATACTTTAAGGAACCGAAGTTATAAAAGAACTCATAAAAGTTTGACAAG---G---
* *
481204 AACAACCAAGAGAGAAACAATTCTCACATAAATAAGATTTTAATTCAAAAACCAAAACTTGTTTA
374 ---AACCAAGAGAGAAAAAATTCTCACATAAATAAGATTTTAATTCAAAAACCAAAAATTGTTTA
* * * * *
481269 TAAAATGACAAACTATTTAGACAAAATGATGTGATTTCCCGAGCATGGAATGTTCGACAAATTGC
436 CAAAATGACAAACTATTTAGACAAAATGATGCGACTTCCCAAGCATGGAATGTTCGAAAAATTGC
* * * *
481334 TGGAAAGAATGGAT-AGTCTTGAATACTTTAAGGAACCAAAGT-TATAAGAACTCGTAAAAGTTT
501 TGGAAAGAATGGATCA-TCTTGAATACTGTAACGAACCAAAGTACAAAAGAACTCGTAAAAGTTT
* ** * *
481397 GTCAAGATT-GGAAGTTCGTCCAAGAACCAAGAGAGAAATAATTTCAAGTAAATAAG
565 GACAA-ATTCAAAAGTTCGTCCAAGAACCAAGAG-GAAAT--TCTCAAGTAAATAAA
* * * * * *
481453 TTTTTAATCCAAAGACCAAAACTTGCTTAAAAAATGAGAAACTTTTTAGACCAAATGATGCGATT
1 ATTTTAATTCAAAGACCAAAACTTGTTTACAAAATGAAAAACTATTTAGACCAAATGATGCGATT
* * *
481518 TCACGAGCATGAAATATTC-GAAAAATTGATCAAAGGAATGGATTCTCTCT-AATAATTTAAGGA
66 TC-CGAGCATGGAATGTTCAG-AAAATTGCTCAAAGGAATGGA-TCTCTCTAAATAATTTAAGGA
*
481581 ACCGAAGTTACAAAAAAACTTGTAAAAGTTTGACAAGTTCGAAAGTTCGTCAAAGAACTAACAGA
128 ACCGAAGTT--AAAAAAACTCGTAAAAGTTTGACAAGTTCGAAAGTTCGTCAAAGAACTAA-AGA
* * *
481646 GAAACAATTCTCACGTAAATAAGTTTTTAATCCAAAGACGAAAACTTGTTTAAAAAATGACAAAC
190 GAAACAATTCTCACGTAAATAAGTTTTTAGTTCAAAGAC-AAAACTTGTTTACAAAATGACAAAC
* ** * *
481711 TATTTAGACCAAATGATGCGATTTCACGAGCATTAAATATTTAGAAAATTGATCGAAGAAATGGA
254 TATTTAGACCAAATAATGCGATTTCACGAGCATGGAAT-TTTAGAAAATTGCTCGAAGGAATGGA
481776 TTGTCTCTAATACTTTAAGGAACCGAAGTTATAAA
318 -T-TCT-TAATACTTTAAGGAACCGAAGTTATAAA
481811 GGTGAGTGCG
Statistics
Matches: 828, Mismatches: 122, Indels: 65
0.82 0.12 0.06
Matches are distributed among these distances:
610 1 0.00
611 3 0.00
612 114 0.14
616 39 0.05
617 3 0.00
618 104 0.13
619 2 0.00
622 2 0.00
625 1 0.00
626 42 0.05
629 1 0.00
634 45 0.05
635 154 0.19
636 2 0.00
637 300 0.36
638 12 0.01
639 3 0.00
ACGTcount: A:0.41, C:0.14, G:0.17, T:0.28
Consensus pattern (617 bp):
ATTTTAATTCAAAGACCAAAACTTGTTTACAAAATGAAAAACTATTTAGACCAAATGATGCGATT
TCCGAGCATGGAATGTTCAGAAAATTGCTCAAAGGAATGGATCTCTCTAAATAATTTAAGGAACC
GAAGTTAAAAAAACTCGTAAAAGTTTGACAAGTTCGAAAGTTCGTCAAAGAACTAAAGAGAAACA
ATTCTCACGTAAATAAGTTTTTAGTTCAAAGACAAAACTTGTTTACAAAATGACAAACTATTTAG
ACCAAATAATGCGATTTCACGAGCATGGAATTTTAGAAAATTGCTCGAAGGAATGGATTCTTAAT
ACTTTAAGGAACCGAAGTTATAAAAGAACTCATAAAAGTTTGACAAGGAACCAAGAGAGAAAAAA
TTCTCACATAAATAAGATTTTAATTCAAAAACCAAAAATTGTTTACAAAATGACAAACTATTTAG
ACAAAATGATGCGACTTCCCAAGCATGGAATGTTCGAAAAATTGCTGGAAAGAATGGATCATCTT
GAATACTGTAACGAACCAAAGTACAAAAGAACTCGTAAAAGTTTGACAAATTCAAAAGTTCGTCC
AAGAACCAAGAGGAAATTCTCAAGTAAATAAA
Found at i:484642 original size:21 final size:21
Alignment explanation
Indices: 484618--484662 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
484608 TATGGTTATC
484618 TTCTTATTTTTCATTTTCATT
1 TTCTTATTTTTCATTTTCATT
* *
484639 TTCTTGTTTTTCATTTTCTTT
1 TTCTTATTTTTCATTTTCATT
484660 TTC
1 TTC
484663 CTCTTGAGAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.09, C:0.16, G:0.02, T:0.73
Consensus pattern (21 bp):
TTCTTATTTTTCATTTTCATT
Found at i:486290 original size:19 final size:20
Alignment explanation
Indices: 486266--486303 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
486256 GAATATTTTT
486266 TATTTTTT-TATTTTTCTCA
1 TATTTTTTCTATTTTTCTCA
*
486285 TATTTTTTCTTTTTTTCTC
1 TATTTTTTCTATTTTTCTC
486304 GACTTTTTGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.11, C:0.13, G:0.00, T:0.76
Consensus pattern (20 bp):
TATTTTTTCTATTTTTCTCA
Found at i:487344 original size:22 final size:21
Alignment explanation
Indices: 487294--487350 Score: 59
Period size: 18 Copynumber: 2.8 Consensus size: 21
487284 AGGCAAGCTA
487294 AATAATTCTAAA-TAGAACTCT
1 AATAA-TCTAAACTAGAACTCT
487315 --TAAT-TAAACTAGAACTCT
1 AATAATCTAAACTAGAACTCT
*
487333 AACTAATCTAAACAAGAA
1 AA-TAATCTAAACTAGAA
487351 GTAGTTTTAA
Statistics
Matches: 30, Mismatches: 1, Indels: 9
0.75 0.03 0.22
Matches are distributed among these distances:
17 4 0.13
18 10 0.33
19 3 0.10
21 4 0.13
22 9 0.30
ACGTcount: A:0.51, C:0.16, G:0.05, T:0.28
Consensus pattern (21 bp):
AATAATCTAAACTAGAACTCT
Found at i:488575 original size:25 final size:25
Alignment explanation
Indices: 488541--488589 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
488531 AAAACAACTT
488541 TTGAAAAAAAACTC-AAGAGCAATTC
1 TTGAAAAAAAACTCAAAGAG-AATTC
*
488566 TTGAAGAAAAACTCAAAGAGAATT
1 TTGAAAAAAAACTCAAAGAGAATT
488590 ATTATTAACT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 17 0.77
26 5 0.23
ACGTcount: A:0.53, C:0.12, G:0.14, T:0.20
Consensus pattern (25 bp):
TTGAAAAAAAACTCAAAGAGAATTC
Found at i:489946 original size:25 final size:24
Alignment explanation
Indices: 489899--489946 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 24
489889 TAAACAACTT
*
489899 TTGAAAAAAACTTAAGAGCAATTC
1 TTGAAAAAAACTAAAGAGCAATTC
489923 TTGATAAAAAACTCAAAGAG-AATT
1 TTGA-AAAAAACT-AAAGAGCAATT
489947 ATTATTAACT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 4 0.19
25 12 0.57
26 5 0.24
ACGTcount: A:0.52, C:0.10, G:0.12, T:0.25
Consensus pattern (24 bp):
TTGAAAAAAACTAAAGAGCAATTC
Found at i:491019 original size:24 final size:24
Alignment explanation
Indices: 490992--491038 Score: 94
Period size: 24 Copynumber: 2.0 Consensus size: 24
490982 TATGAGTATC
490992 TTCTTGTTTTTCATTTTCTTTTTG
1 TTCTTGTTTTTCATTTTCTTTTTG
491016 TTCTTGTTTTTCATTTTCTTTTT
1 TTCTTGTTTTTCATTTTCTTTTT
491039 CCTCTTGAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.04, C:0.13, G:0.06, T:0.77
Consensus pattern (24 bp):
TTCTTGTTTTTCATTTTCTTTTTG
Found at i:491037 original size:12 final size:12
Alignment explanation
Indices: 490998--491039 Score: 50
Period size: 12 Copynumber: 3.5 Consensus size: 12
490988 TATCTTCTTG
490998 TTTTTCATTTTC
1 TTTTTCATTTTC
* *
491010 TTTTT-GTTCTTG
1 TTTTTCATT-TTC
491022 TTTTTCATTTTC
1 TTTTTCATTTTC
491034 TTTTTC
1 TTTTTC
491040 CTCTTGAGAA
Statistics
Matches: 24, Mismatches: 4, Indels: 4
0.75 0.12 0.12
Matches are distributed among these distances:
11 2 0.08
12 20 0.83
13 2 0.08
ACGTcount: A:0.05, C:0.14, G:0.05, T:0.76
Consensus pattern (12 bp):
TTTTTCATTTTC
Found at i:491044 original size:24 final size:24
Alignment explanation
Indices: 490993--491045 Score: 88
Period size: 24 Copynumber: 2.2 Consensus size: 24
490983 ATGAGTATCT
**
490993 TCTTGTTTTTCATTTTCTTTTTGT
1 TCTTGTTTTTCATTTTCTTTTTCC
491017 TCTTGTTTTTCATTTTCTTTTTCC
1 TCTTGTTTTTCATTTTCTTTTTCC
491041 TCTTG
1 TCTTG
491046 AGAACTCTCC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.04, C:0.17, G:0.08, T:0.72
Consensus pattern (24 bp):
TCTTGTTTTTCATTTTCTTTTTCC
Found at i:495002 original size:14 final size:16
Alignment explanation
Indices: 494968--494998 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
494958 ATTTCCTCTC
*
494968 CAAGAAAAAATCTTGG
1 CAAGAAAAAAGCTTGG
494984 CAAGAAAAAAGCTTG
1 CAAGAAAAAAGCTTG
494999 AAGATGATTC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.52, C:0.13, G:0.19, T:0.16
Consensus pattern (16 bp):
CAAGAAAAAAGCTTGG
Found at i:498581 original size:67 final size:67
Alignment explanation
Indices: 498502--498635 Score: 250
Period size: 67 Copynumber: 2.0 Consensus size: 67
498492 AACTAGAACG
*
498502 ATAGATTAAAGATAGAAAAGAGAAGATAACGTCCTAAGAAGCCTTGGAAACAATAAGAATCCACA
1 ATAGATTAAAGATAGAAAAGAGAAGATAACGTCCTAAGAAGCCTTAGAAACAATAAGAATCCACA
498567 AC
66 AC
*
498569 ATAGATTAAAGATAGAAAAGAGAAGATAATGTCCTAAGAAGCCTTAGAAACAATAAGAATCCACA
1 ATAGATTAAAGATAGAAAAGAGAAGATAACGTCCTAAGAAGCCTTAGAAACAATAAGAATCCACA
498634 AC
66 AC
498636 TCCCTTCAAT
Statistics
Matches: 65, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
67 65 1.00
ACGTcount: A:0.51, C:0.14, G:0.17, T:0.17
Consensus pattern (67 bp):
ATAGATTAAAGATAGAAAAGAGAAGATAACGTCCTAAGAAGCCTTAGAAACAATAAGAATCCACA
AC
Found at i:501316 original size:17 final size:17
Alignment explanation
Indices: 501279--501316 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
501269 GGAATTTTTT
*
501279 TTTTCTTTTTCTCGTAT
1 TTTTCTTTTTCTCGTAC
501296 TTTTCTTTTTTCTC-TAC
1 TTTTC-TTTTTCTCGTAC
501313 TTTT
1 TTTT
501317 TTGATCACTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 11 0.58
18 8 0.42
ACGTcount: A:0.05, C:0.18, G:0.03, T:0.74
Consensus pattern (17 bp):
TTTTCTTTTTCTCGTAC
Found at i:506577 original size:14 final size:15
Alignment explanation
Indices: 506554--506586 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
506544 TATGAGTGAT
*
506554 AATTTAAGAAGAAAA
1 AATTTAAGAAAAAAA
506569 AATTT-AGAAAAAAA
1 AATTTAAGAAAAAAA
506583 AATT
1 AATT
506587 ATATTGATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 12 0.71
15 5 0.29
ACGTcount: A:0.67, C:0.00, G:0.09, T:0.24
Consensus pattern (15 bp):
AATTTAAGAAAAAAA
Found at i:519529 original size:50 final size:50
Alignment explanation
Indices: 519449--519547 Score: 121
Period size: 50 Copynumber: 2.0 Consensus size: 50
519439 GTTAGTTAAA
* *
519449 GTTTGCATATTAAATAAAGTCATGCATTAAGTAACTTATTTGTTCATTTG
1 GTTTGCATATTAAATAAAGTCATGCATTAAGCAACTTATGTGTTCATTTG
* * *
519499 GTTTGCATATTAAAT-AAGT-ATTTCATTTAAGCATCTTGTGTGTTCATTT
1 GTTTGCATATTAAATAAAGTCA-TGCA-TTAAGCAACTTATGTGTTCATTT
519548 ACTTTAAACA
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
48 1 0.02
49 7 0.17
50 34 0.81
ACGTcount: A:0.29, C:0.10, G:0.14, T:0.46
Consensus pattern (50 bp):
GTTTGCATATTAAATAAAGTCATGCATTAAGCAACTTATGTGTTCATTTG
Found at i:531936 original size:19 final size:19
Alignment explanation
Indices: 531914--531950 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
531904 TCAAAAAGTA
531914 GAGAAAAA-AAGAAAAATAC
1 GAGAAAAATAA-AAAAATAC
531933 GAGAAAAATAAAAAAATA
1 GAGAAAAATAAAAAAATA
531951 AAAAAAAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 15 0.88
20 2 0.12
ACGTcount: A:0.76, C:0.03, G:0.14, T:0.08
Consensus pattern (19 bp):
GAGAAAAATAAAAAAATAC
Done.